Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold28
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2815568
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.30
Warning! 166732 characters in sequence are not A, C, G, or T
File 13 of 16
Found at i:2078960 original size:32 final size:32
Alignment explanation
Indices: 2078845--2079017 Score: 154
Period size: 32 Copynumber: 5.4 Consensus size: 32
2078835 AAGTCAGGCT
* * *
2078845 TGTCTTTTTTAATCAAGTTAAAATTTAGACCTA
1 TGTCTTTCTAAAT-AAGTCAAAATTTAGACCTA
* * * *
2078878 TGTTTTTCTAAATAAGTCAAAAGTCA-AACT-
1 TGTCTTTCTAAATAAGTCAAAATTTAGACCTA
* *
2078908 TGTTCTTTCCAAACAAGTCAAAATTTAGACCTA
1 TG-TCTTTCTAAATAAGTCAAAATTTAGACCTA
* * * * *
2078941 TGTCTTTCTAATTAGGTCAAAAGTTAAACTTA
1 TGTCTTTCTAAATAAGTCAAAATTTAGACCTA
* * *
2078973 T-TTTTTCTAAATAAGTCAAAATTTGGAACTA
1 TGTCTTTCTAAATAAGTCAAAATTTAGACCTA
2079004 TGTCTTTCTAAATA
1 TGTCTTTCTAAATA
2079018 GGTTAAAAGT
Statistics
Matches: 107, Mismatches: 29, Indels: 9
0.74 0.20 0.06
Matches are distributed among these distances:
30 2 0.02
31 45 0.42
32 48 0.45
33 12 0.11
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (32 bp):
TGTCTTTCTAAATAAGTCAAAATTTAGACCTA
Found at i:2078994 original size:126 final size:125
Alignment explanation
Indices: 2078774--2079351 Score: 389
Period size: 126 Copynumber: 4.6 Consensus size: 125
2078764 AGGTTATATA
* * *
2078774 TCAAACTTGTATCCTTCTGAACAAGTCAAAATTTGAACCTATTTCTTTCTGAATAGG-CTAAAAG
1 TCAAACTTGTATCTTTCTAAACAAGTCAAAATTTGAACCTATATCTTTCT-AATAGGTC-AAAAG
* ** * * *
2078838 TCAGGCTTGTCTTTTTT-AATCAAGTTAAAATTTAGACCTATGTTTTTCTAAATAAGTCAAAAG
64 TTAAACTTAT-TTTTTTAAAT-AAGTAAAAATTTAGACCTATGTTTTTCTAAATAAGTTAAAAG
* *
2078901 TCAAACTTGT-TCTTTCCAAACAAGTCAAAATTT-AGACCTATGTCTTTCTAATTAGGTCAAAAG
1 TCAAACTTGTATCTTTCTAAACAAGTCAAAATTTGA-ACCTATATCTTTCTAA-TAGGTCAAAAG
* * * * *
2078964 TTAAACTTATTTTTTCTAAATAAGTCAAAATTTGGAACTATGTCTTTCTAAATAGGTTAAAAG
64 TTAAACTTATTTTTT-TAAATAAGTAAAAATTTAGACCTATGTTTTTCTAAATAAGTTAAAAG
* * * *
2079027 TC-AA-TTGTCTCTTTTTGAAA-AAGTCAAAAGTTGAACCTATATCCTTT-TAAATAGGTGAAAA
1 TCAAACTTGTATCTTTCT-AAACAAGTCAAAATTTGAACCTATAT-CTTTCT-AATAGGTCAAAA
* * * * *
2079088 -TTCAAACTAGTCACTTTTTGAACA-AA-TAAAAATTTAAACCTATATCTTTT-TGAATAAGTTA
63 GTT-AAACT--T-ATTTTTTTAA-ATAAGTAAAAATTTAGACCTATGT-TTTTCTAAATAAGTTA
2079149 AAAG
122 AAAG
* * ** * * * * **
2079153 TCAAACTTGTTTTTTTCTAAACAAGTCAAAAGCTGAACTTTTATTTTTCTAAATAGGTTAGGAGT
1 TCAAACTTGTATCTTTCTAAACAAGTCAAAATTTGAACCTATATCTTTCT-AATAGGTCAAAAGT
* ** * * * * *
2079218 TAAACTTAGCTCTTTCCAAACAATTTAAAATTT-GAACCTATGTCTTTTGT--ATATGTTAAAAG
65 TAAACTTA--TTTTTTTAAATAAGTAAAAATTTAG-ACCTATGT-TTTTCTAAATAAGTTAAAAG
* * * * * * *
2079280 TTAAACTCGT-TTTTTCTATACAAGTCAAAATTTGAACCTATAT-TTTTTAAATAGGTTAATAGT
1 TCAAACTTGTATCTTTCTAAACAAGTCAAAATTTGAACCTATATCTTTCT-AATAGGTCAAAAGT
2079343 TAAACTTAT
65 TAAACTTAT
2079352 GTCCTTGTGA
Statistics
Matches: 367, Mismatches: 57, Indels: 58
0.76 0.12 0.12
Matches are distributed among these distances:
123 1 0.00
124 6 0.02
125 74 0.20
126 156 0.43
127 56 0.15
128 71 0.19
129 3 0.01
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (125 bp):
TCAAACTTGTATCTTTCTAAACAAGTCAAAATTTGAACCTATATCTTTCTAATAGGTCAAAAGTT
AAACTTATTTTTTTAAATAAGTAAAAATTTAGACCTATGTTTTTCTAAATAAGTTAAAAG
Found at i:2079078 original size:62 final size:64
Alignment explanation
Indices: 2078745--2079372 Score: 332
Period size: 63 Copynumber: 9.9 Consensus size: 64
2078735 ATTATAGCCA
* * * * * * *
2078745 AACCTATATCTTTCTGAATAGGTTATATA-TCAAACTTGTATCCTTCTGAACAAGTCAAAATTTG
1 AACCTATATCTTTCTAAATAGGTTA-AAAGTCAAACTTGTCTCTTTTTGAAAAAGTCAAAAGTTG
* * * ** * * *
2078809 AACCTATTTCTTTCTGAATAGGCTAAAAGTCAGGCTTGTCT-TTTTT-AATCAAGTTAAAA-TTT
1 AACCTATATCTTTCTAAATAGGTTAAAAGTCAAACTTGTCTCTTTTTGAA-AAAGTCAAAAGTTG
* * * * **
2078871 AGACCTATGTTTTTCTAAATAAGTCAAAAGTCAAACTTGT-TC-TTTCCAAACAAGTCAAAA-TT
1 A-ACCTATATCTTTCTAAATAGGTTAAAAGTCAAACTTGTCTCTTTTTGAAA-AAGTCAAAAGTT
*
2078933 T
64 G
* * * * * *
2078934 AGACCTATGTCTTTCTAATTAGGTCAAAAGTTAAACTTAT-T-TTTTCT-AAATAAGTCAAAATT
1 A-ACCTATATCTTTCTAAATAGGTTAAAAGTCAAACTTGTCTCTTTT-TGAAA-AAGTCAAAAGT
2078996 TGG
63 T-G
*
2078999 AA-CTATGTCTTTCTAAATAGGTTAAAAGTC-AA-TTGTCTCTTTTTGAAAAAGTCAAAAGTTG
1 AACCTATATCTTTCTAAATAGGTTAAAAGTCAAACTTGTCTCTTTTTGAAAAAGTCAAAAGTTG
* * * * * *
2079060 AACCTATATCCTTT-TAAATAGGTGAAAATTCAAACTAGTCACTTTTTGAACAAA-TAAAAATTT
1 AACCTATAT-CTTTCTAAATAGGTTAAAAGTCAAACTTGTCTCTTTTTGAA-AAAGTCAAAAGTT
*
2079123 A
64 G
* * * * *
2079124 AACCTATATCTTTTTGAATAAGTTAAAAGTCAAACTTGT-T-TTTTTCTAAACAAGTCAAAAGCT
1 AACCTATATCTTTCTAAATAGGTTAAAAGTCAAACTTGTCTCTTTTT-GAAA-AAGTCAAAAGTT
2079187 G
64 G
* * * ** * ** * * *
2079188 AACTTTTATTTTTCTAAATAGGTTAGGAGTTAAACTTAG-CTC-TTTCCAAACAATTTAAAATTT
1 AACCTATATCTTTCTAAATAGGTTAAAAGTCAAACTT-GTCTCTTTTTGAAA-AAGTCAAAAGTT
2079251 G
64 G
* ** * * * * *
2079252 AACCTATGTCTTT-TGTATATGTTAAAAGTTAAACTCGT-T-TTTTCT-ATACAAGTCAAAATTT
1 AACCTATATCTTTCTAAATAGGTTAAAAGTCAAACTTGTCTCTTTT-TGA-AAAAGTCAAAAGTT
2079313 G
64 G
* * * * * * * *
2079314 AACCTATAT-TTTTTAAATAGGTTAATAGTTAAACTTATGTCCTTGTGAACAAGTCAAAA
1 AACCTATATCTTTCTAAATAGGTTAAAAGTCAAACTTGTCTCTTTTTGAAAAAGTCAAAA
2079373 AAGTTTAACC
Statistics
Matches: 440, Mismatches: 91, Indels: 67
0.74 0.15 0.11
Matches are distributed among these distances:
61 9 0.02
62 94 0.21
63 185 0.42
64 143 0.32
65 9 0.02
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (64 bp):
AACCTATATCTTTCTAAATAGGTTAAAAGTCAAACTTGTCTCTTTTTGAAAAAGTCAAAAGTTG
Found at i:2079128 original size:64 final size:64
Alignment explanation
Indices: 2079007--2079159 Score: 177
Period size: 64 Copynumber: 2.4 Consensus size: 64
2078997 GGAACTATGT
* * * *
2079007 CTTTCTAAATAGGTTAAAAGTC-AA-TTGTCTCTTTTTGAAAAAGTCAAAAGTTGAACCTATATC
1 CTTT-TAAATAGGTTAAAAGTCAAACTAGTCACTTTTTGAAAAAGTAAAAAGTTAAACCTATATC
* * *
2079070 CTTTTAAATAGGTGAAAATTCAAACTAGTCACTTTTTGAACAAA-TAAAAATTTAAACCTATATC
1 CTTTTAAATAGGTTAAAAGTCAAACTAGTCACTTTTTGAA-AAAGTAAAAAGTTAAACCTATATC
* * *
2079134 TTTTTGAATAAGTTAAAAGTCAAACT
1 CTTTTAAATAGGTTAAAAGTCAAACT
2079160 TGTTTTTTTC
Statistics
Matches: 75, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
62 15 0.20
63 6 0.08
64 51 0.68
65 3 0.04
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.36
Consensus pattern (64 bp):
CTTTTAAATAGGTTAAAAGTCAAACTAGTCACTTTTTGAAAAAGTAAAAAGTTAAACCTATATC
Found at i:2083905 original size:34 final size:34
Alignment explanation
Indices: 2083841--2083969 Score: 154
Period size: 34 Copynumber: 3.8 Consensus size: 34
2083831 AGTGATTGAG
*
2083841 AGGTTCTATCTTAGCCTT-TAAAAAAGATAGGGAAA
1 AGGTTCTATCTTAG-CTTAT-GAAAAGATAGGGAAA
*
2083876 AGGTTCTATCTTAGCTTATGAAAAGATAGGGAAG
1 AGGTTCTATCTTAGCTTATGAAAAGATAGGGAAA
* * *
2083910 AGGTTCTATCTTTA-CCTATGAAAAGATAGAGAGA
1 AGGTTCTATC-TTAGCTTATGAAAAGATAGGGAAA
* *
2083944 AGGTTCTATATTAGCTTGTGAAAAGA
1 AGGTTCTATCTTAGCTTATGAAAAGA
2083970 AAGGTTTGTG
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
33 3 0.04
34 61 0.74
35 18 0.22
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.30
Consensus pattern (34 bp):
AGGTTCTATCTTAGCTTATGAAAAGATAGGGAAA
Found at i:2083947 original size:68 final size:69
Alignment explanation
Indices: 2083839--2083969 Score: 185
Period size: 68 Copynumber: 1.9 Consensus size: 69
2083829 GAAGTGATTG
* * *
2083839 AGAGGTTCTATCTTAGCCTTTAAAAAAGATAGGGAAAAGGTTCTATCTTAGCTTATGAAAAGATA
1 AGAGGTTCTATCTTAGCCTATAAAAAAGATAGAGAAAAGGTTCTATATTAGCTTATGAAAAGATA
2083904 GGGA
66 GGGA
* * *
2083908 AGAGGTTCTATCTTTA-CCTAT-GAAAAGATAGAGAGAAGGTTCTATATTAGCTTGTGAAAAGA
1 AGAGGTTCTATC-TTAGCCTATAAAAAAGATAGAGAAAAGGTTCTATATTAGCTTATGAAAAGA
2083970 AAGGTTTGTG
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
68 36 0.65
69 16 0.29
70 3 0.05
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (69 bp):
AGAGGTTCTATCTTAGCCTATAAAAAAGATAGAGAAAAGGTTCTATATTAGCTTATGAAAAGATA
GGGA
Found at i:2087321 original size:19 final size:20
Alignment explanation
Indices: 2087284--2087321 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2087274 TCCCATAGCT
2087284 ATGTATCGATACAATTCATA
1 ATGTATCGATACAATTCATA
2087304 ATGTATCGATAC-ATTCAT
1 ATGTATCGATACAATTCAT
2087322 TTGAAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACAATTCATA
Found at i:2087442 original size:20 final size:19
Alignment explanation
Indices: 2087416--2087487 Score: 83
Period size: 20 Copynumber: 3.7 Consensus size: 19
2087406 ACTACCAGTT
2087416 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAA-TGA
*
2087435 TCCATGTATTGATACAATGA
1 T-CATGTATCGATACAATGA
*
2087455 TCATGTATCGATACAAAGCA
1 TCATGTATCGATACAATG-A
*
2087475 TAATGTATCGATA
1 TCATGTATCGATA
2087488 TGTTTGGGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
19 18 0.39
20 28 0.61
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:2087461 original size:19 final size:19
Alignment explanation
Indices: 2087416--2087470 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 19
2087406 ACTACCAGTT
2087416 TCATGTATCGATACAATTG
1 TCATGTATCGATACAATTG
*
2087435 TCCATGTATTGATACAA-TG
1 T-CATGTATCGATACAATTG
2087454 ATCATGTATCGATACAA
1 -TCATGTATCGATACAA
2087471 AGCATAATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Consensus pattern (19 bp):
TCATGTATCGATACAATTG
Found at i:2088124 original size:17 final size:18
Alignment explanation
Indices: 2088102--2088144 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
2088092 TCAAAATATG
2088102 TAAAAATACAAT-TTACT
1 TAAAAATACAATATTACT
* *
2088119 TAAAAAAATAATATTACT
1 TAAAAATACAATATTACT
*
2088137 TATAAATA
1 TAAAAATA
2088145 ATTTTATAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (18 bp):
TAAAAATACAATATTACT
Found at i:2089074 original size:190 final size:191
Alignment explanation
Indices: 2088744--2089116 Score: 520
Period size: 190 Copynumber: 2.0 Consensus size: 191
2088734 ACAAAGGGCC
* * *
2088744 TATCTTCAGAAAAGATTACCTTCAAAATTTTAAAGCATTATGGTGTCTTAAGGAAATATGATCAA
1 TATCTTAAGAAAAGATTACCTTCAAAAATTTAAAGCATTATGGTGTCTTAAAGAAATATGATCAA
** * * *
2088809 TTTTATTATGGGAAGCATGATGTTTGTTCATCATTACTCAGTGTATTTATTATGGTATAATAATA
66 TTTTATTATGGGAAGCACAATGTTCGTTCATCATTACTCAGTATATTTACTATGGTATAATAATA
* * *
2088874 TACACAAAAGAT-ATAGAAAATGGTAAA-CCATGAAAA-AAATAGCACAGAAAAAAATAATAA
131 TACACAAAAGATAAAAAAAAAAGG-AAATCCATGAAAACAAATAGCACA-AAAAAAATAATAA
* * * *
2088934 TATCTTAAGAAAAGATTGCCTTGAAAAATTTAAGGTATTATGGTG-CTTTAAAGAAATATGATCA
1 TATCTTAAGAAAAGATTACCTTCAAAAATTTAAAGCATTATGGTGTC-TTAAAGAAATATGATCA
* * *
2088998 ATTTTATTGTGGGTAGCACAATGTTCGTTCATGATTACTCAGTATATTTACTATGGTATAATAAT
65 ATTTTATTATGGGAAGCACAATGTTCGTTCATCATTACTCAGTATATTTACTATGGTATAATAAT
*
2089063 ATACACAAAAGATAAAAAAAAAAGGAAATCCATGAAAACAAGTAGCACAAAAAA
130 ATACACAAAAGATAAAAAAAAAAGGAAATCCATGAAAACAAATAGCACAAAAAA
2089117 TTAACAAAGA
Statistics
Matches: 160, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
189 1 0.01
190 128 0.80
191 22 0.14
192 9 0.06
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (191 bp):
TATCTTAAGAAAAGATTACCTTCAAAAATTTAAAGCATTATGGTGTCTTAAAGAAATATGATCAA
TTTTATTATGGGAAGCACAATGTTCGTTCATCATTACTCAGTATATTTACTATGGTATAATAATA
TACACAAAAGATAAAAAAAAAAGGAAATCCATGAAAACAAATAGCACAAAAAAAATAATAA
Found at i:2091594 original size:16 final size:16
Alignment explanation
Indices: 2091573--2091622 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
2091563 AGGACTCTAG
2091573 ACCTATTCGATCAAAT
1 ACCTATTCGATCAAAT
* *
2091589 ACCTA-TC--TC-TAG
1 ACCTATTCGATCAAAT
2091601 ACCTATTCGATCAAAT
1 ACCTATTCGATCAAAT
2091617 ACCTAT
1 ACCTAT
2091623 GGCCTAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
12 6 0.23
13 4 0.15
15 4 0.15
16 12 0.46
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.32
Consensus pattern (16 bp):
ACCTATTCGATCAAAT
Found at i:2091600 original size:28 final size:28
Alignment explanation
Indices: 2091567--2091622 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
2091557 TACCTTAGGA
2091567 CTCTAGACCTATTCGATCAAATACCTAT
1 CTCTAGACCTATTCGATCAAATACCTAT
2091595 CTCTAGACCTATTCGATCAAATACCTAT
1 CTCTAGACCTATTCGATCAAATACCTAT
2091623 GGCCTAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.29, G:0.07, T:0.32
Consensus pattern (28 bp):
CTCTAGACCTATTCGATCAAATACCTAT
Found at i:2095022 original size:62 final size:62
Alignment explanation
Indices: 2094906--2095022 Score: 144
Period size: 62 Copynumber: 1.9 Consensus size: 62
2094896 GTAAAAACAA
* ** * * * * *
2094906 GGTTGAAGTAGCCTCTTGGAGATGGTGGTGTAGGAGTATCCCTAGAGATGAAATATTCAATG
1 GGTTGAAGTAGCCCCTCAGAGATAGTGGGGTAGGAGTATCCCCAAAGATCAAATATTCAATG
* *
2094968 GGTTGAAGTATCCCCTCAGAGATAGTGGGGTTGGAGTATCCCCAAAGATCAAATA
1 GGTTGAAGTAGCCCCTCAGAGATAGTGGGGTAGGAGTATCCCCAAAGATCAAATA
2095023 AATTTGGCAA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
62 45 1.00
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (62 bp):
GGTTGAAGTAGCCCCTCAGAGATAGTGGGGTAGGAGTATCCCCAAAGATCAAATATTCAATG
Found at i:2105627 original size:51 final size:52
Alignment explanation
Indices: 2105565--2105697 Score: 144
Period size: 51 Copynumber: 2.6 Consensus size: 52
2105555 TGGAAAGAAT
* * * * ***
2105565 ATGTATGGATACATTTTTCACTATATCGATAG-ATTCTGGGTTTTGGTCC-AA
1 ATGTATCGATACATTCTTCACTATATCAAT-GCATTCTAGGTTTTAAACCTAA
* *
2105616 ATGTATCGATACATTCTTCATTGTATCAATGCATTCTAGGTTTTAAACCTAA
1 ATGTATCGATACATTCTTCACTATATCAATGCATTCTAGGTTTTAAACCTAA
* *
2105668 ATGTATCGATACATTCTTCAATGTATCAAT
1 ATGTATCGATACATTCTTCACTATATCAAT
2105698 ATATCCAGTT
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
50 1 0.01
51 38 0.54
52 31 0.44
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (52 bp):
ATGTATCGATACATTCTTCACTATATCAATGCATTCTAGGTTTTAAACCTAA
Found at i:2110771 original size:79 final size:80
Alignment explanation
Indices: 2110630--2110822 Score: 266
Period size: 79 Copynumber: 2.4 Consensus size: 80
2110620 AAGTTTCCTT
* *
2110630 TCAAAGATAATGGGGTTTGAGTATCCCCAGAGATGAAAAATTCGATGTTTTAGAAGTAAAAAT-G
1 TCAAAGATAGTGGGGTTAGAGTATCCCCAGAGATGAAAAATTCGATGTTTTAGAAGTAAAAATGG
*
2110694 GGTTGGAGTATATT-C
66 GGTTAGAGTAT-TTCC
* * * *
2110709 TCAGAGATGGTGGGGTTAGAGTATCCCCAGAGATGAAATATTC-AGTGTTTTGGAAGTAAAAATG
1 TCAAAGATAGTGGGGTTAGAGTATCCCCAGAGATGAAAAATTCGA-TGTTTTAGAAGTAAAAATG
*
2110773 GGGTTAGAGTGTTTCC
65 GGGTTAGAGTATTTCC
*
2110789 TCAAAGATAGTGGGGTTAGAGTATCCCCAAAGAT
1 TCAAAGATAGTGGGGTTAGAGTATCCCCAGAGAT
2110823 AATAAAAAAA
Statistics
Matches: 100, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
78 1 0.01
79 57 0.57
80 42 0.42
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.29
Consensus pattern (80 bp):
TCAAAGATAGTGGGGTTAGAGTATCCCCAGAGATGAAAAATTCGATGTTTTAGAAGTAAAAATGG
GGTTAGAGTATTTCC
Found at i:2113589 original size:79 final size:78
Alignment explanation
Indices: 2113426--2113773 Score: 234
Period size: 79 Copynumber: 4.5 Consensus size: 78
2113416 AACGGGCTGA
* * * * * *
2113426 AGTACCCCCGATTATGGAAAATCGGTGTTTTAGAAATAAAAATCAAGGTTGGAGTATCCCCTCAG
1 AGTATCCCCAATTAT-GAAAATCGATGTTTTAGAAAT-AAAATCGAGGTTGGAGTATCCTCTCAA
** **
2113491 AAATAATAGGGTTAA
64 AAATAACGGGGTTGG
* * *
2113506 AGTATCCCTAATTATAGAAAATCGACGTTTT-GAAAATAAAATCGAGATTGGAGTATCCTCTCAA
1 AGTATCCCCAATTAT-GAAAATCGATGTTTTAG-AAATAAAATCGAGGTTGGAGTATCCTCTCAA
2113570 AAATAACGGGGTTGG
64 AAATAACGGGGTTGG
* * * * * * * *
2113585 AGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGTCGAGGTTAGAATATCCT-TACCA
1 AGTATCCCCAATTATGA-AAATCGATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCTCT-CAA
2113649 AAATAACGGGGTTGG
64 AAATAACGGGGTTGG
* * * ** * **
2113664 AGTATCTCCGATTGTGAGAAATAAAT-ATTT-----TAAAAT---GGTTGGAGTATCCTCTCGGA
1 AGTATCCCCAATTATGA-AAATCGATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCTCTCAAA
* *
2113720 AATAACGAGATTGG
65 AATAACGGGGTTGG
** *
2113734 AGTAT-CCCAATTATGAAAAATTAATGTTTTGGAAATAAAA
1 AGTATCCCCAATTATG-AAAATCGATGTTTTAGAAATAAAA
2113774 CCAGGGCTAG
Statistics
Matches: 216, Mismatches: 40, Indels: 29
0.76 0.14 0.10
Matches are distributed among these distances:
69 14 0.06
70 35 0.16
71 1 0.00
73 5 0.02
75 5 0.02
78 6 0.03
79 120 0.56
80 30 0.14
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (78 bp):
AGTATCCCCAATTATGAAAATCGATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCTCTCAAAA
ATAACGGGGTTGG
Found at i:2113800 original size:50 final size:50
Alignment explanation
Indices: 2113746--2113864 Score: 130
Period size: 50 Copynumber: 2.3 Consensus size: 50
2113736 TATCCCAATT
* ** * * **
2113746 ATGAAAAATTAATGTTTTGGAAATAAAACCAGGGCTAGAGTATCCCTGAG
1 ATGAAAAATCAAAATTTTAGAAATAAAACCAGGGCTAGAGTACCCCCAAG
* * *
2113796 ATGAAAAATCAAAATTTTAGAAATAAAGCCGGGGTTAGAGTACCCCCAAG
1 ATGAAAAATCAAAATTTTAGAAATAAAACCAGGGCTAGAGTACCCCCAAG
2113846 ATGAAAAATCTAGAAATTT
1 ATGAAAAATC-A-AAATTT
2113865 AACAAAAATA
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 50 0.88
51 1 0.02
52 6 0.11
ACGTcount: A:0.44, C:0.13, G:0.19, T:0.24
Consensus pattern (50 bp):
ATGAAAAATCAAAATTTTAGAAATAAAACCAGGGCTAGAGTACCCCCAAG
Found at i:2118786 original size:20 final size:20
Alignment explanation
Indices: 2118757--2118808 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
2118747 TACAAGCCAA
**
2118757 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTTG
*
2118777 TGTATTGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
2118796 TGTATCGATACAA
1 TGTATCGATACAA
2118809 GTTTGGCTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:2119508 original size:39 final size:40
Alignment explanation
Indices: 2119434--2119510 Score: 95
Period size: 39 Copynumber: 1.9 Consensus size: 40
2119424 TTTTCTTTCT
**
2119434 CCCTTAATTGAAGTAATTTTAACAAATTCGTGCATTCTCC
1 CCCTTAATTGAAGTAATTTTAACAAATTCACGCATTCTCC
* *
2119474 CCCTTAA-T-AAGATAATTTTAGCAAATTTACGCATTCT
1 CCCTTAATTGAAG-TAATTTTAACAAATTCACGCATTCT
2119511 TCCTTTTTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
38 3 0.09
39 22 0.69
40 7 0.22
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (40 bp):
CCCTTAATTGAAGTAATTTTAACAAATTCACGCATTCTCC
Found at i:2121392 original size:13 final size:13
Alignment explanation
Indices: 2121354--2121394 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
2121344 ATAATCCCCC
*
2121354 TGTATCGATACAG
1 TGTATCGATACAT
2121367 TGTATCGATACAT
1 TGTATCGATACAT
*
2121380 TGTATTGATACAT
1 TGTATCGATACAT
2121393 TG
1 TG
2121395 AATTTCCAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2127514 original size:20 final size:20
Alignment explanation
Indices: 2127489--2127540 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
2127479 TACAAGCCAA
**
2127489 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTTG
2127509 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
2127528 TGTATCGATACAA
1 TGTATCGATACAA
2127541 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:2128294 original size:79 final size:79
Alignment explanation
Indices: 2128096--2128300 Score: 214
Period size: 79 Copynumber: 2.6 Consensus size: 79
2128086 AATAATAGGG
* * * * * * *
2128096 TTAGAGTATCTCTGATTATAAAAAATCAGTGTTTTGAAAATAAAATCGGAATTGGAGTATCCCCT
1 TTAGAGTATCCCTGATTATGAAAAATTAATGTTTTGGAAATAAAATCGGAATTGGAATATCCCCG
*
2128161 CAAAAATAACAAGG
66 CAAAAATAACAAGA
* * * * * * * * *
2128175 TTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAATTCGAGGA-TGGAATATCCCC
1 TTAGAGTATCCCTGATTATGAAAAATTAATGTTTTGGAAATAAAATCG-GAATTGGAATATCCCC
*
2128239 GCCAAAATAACAAGA
65 GCAAAAATAACAAGA
* *
2128254 TTAGAGTATCCCTGATTATGAAAAATTGATGTTTTGGAAATAGAATC
1 TTAGAGTATCCCTGATTATGAAAAATTAATGTTTTGGAAATAAAATC
2128301 AGGGCTAGAG
Statistics
Matches: 99, Mismatches: 26, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
79 97 0.98
80 2 0.02
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (79 bp):
TTAGAGTATCCCTGATTATGAAAAATTAATGTTTTGGAAATAAAATCGGAATTGGAATATCCCCG
CAAAAATAACAAGA
Found at i:2134507 original size:18 final size:19
Alignment explanation
Indices: 2134485--2134534 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 19
2134475 AATAATTCTT
2134485 TTTAAATTTTTTATTAATA
1 TTTAAATTTTTTATTAATA
* *
2134504 -TT-AATTTTAT-TTGATA
1 TTTAAATTTTTTATTAATA
2134520 TTTAAATGTTTTTAT
1 TTTAAAT-TTTTTAT
2134535 GTTGAATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 7
0.71 0.09 0.21
Matches are distributed among these distances:
16 5 0.21
17 9 0.38
18 5 0.21
19 4 0.17
20 1 0.04
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (19 bp):
TTTAAATTTTTTATTAATA
Found at i:2136369 original size:20 final size:20
Alignment explanation
Indices: 2136327--2136395 Score: 84
Period size: 20 Copynumber: 3.4 Consensus size: 20
2136317 TTCTACAATT
* * *
2136327 TGTATCAATACAACAAGTTAA
1 TGTATCGATAC-ATAAGTGAA
*
2136348 TGTATCGATAGATAAGTGAA
1 TGTATCGATACATAAGTGAA
2136368 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
*
2136388 TATATCGA
1 TGTATCGA
2136396 CACTGGACCC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 33 0.79
21 9 0.21
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:2140159 original size:13 final size:14
Alignment explanation
Indices: 2140141--2140174 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
2140131 ATTTCTCTGT
2140141 TTTCTTTTTTT-TC
1 TTTCTTTTTTTCTC
2140154 TTTCTTTTTTTCTC
1 TTTCTTTTTTTCTC
2140168 TTT-TTTT
1 TTTCTTTT
2140175 CTCACTAGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 15 0.75
14 5 0.25
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTCTTTTTTTCTC
Found at i:2140169 original size:10 final size:10
Alignment explanation
Indices: 2140140--2140177 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
2140130 TATTTCTCTG
2140140 TTTTCT-TTT
1 TTTTCTCTTT
2140149 TTTTCTTTCTTT
1 TTTTC--TCTTT
2140161 TTTTCTCTTT
1 TTTTCTCTTT
2140171 TTTTCTC
1 TTTTCTC
2140178 ACTAGCCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 5 0.19
10 12 0.46
11 1 0.04
12 8 0.31
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTCTCTTT
Found at i:2142712 original size:3 final size:3
Alignment explanation
Indices: 2142690--2142723 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
2142680 AACCATCAAA
* *
2142690 GAT GAT GAA GAT GAT AAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
2142724 GTGAATCGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:2145215 original size:19 final size:20
Alignment explanation
Indices: 2145170--2145216 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
2145160 TACCAATCTA
**
2145170 ATGTATCGATACAATTGTCC
1 ATGTATCGATACAATTGAAC
2145190 ATGTATCGATACAA-TGAAC
1 ATGTATCGATACAATTGAAC
*
2145209 TTGTATCG
1 ATGTATCG
2145217 TGAAAGCTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATTGAAC
Found at i:2146002 original size:13 final size:13
Alignment explanation
Indices: 2145984--2146009 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2145974 CATTTTGGGA
2145984 TGTATCGATACAT
1 TGTATCGATACAT
2145997 TGTATCGATACAT
1 TGTATCGATACAT
2146010 ATTGGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2146696 original size:22 final size:22
Alignment explanation
Indices: 2146669--2146713 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
2146659 TTTTCTTTTC
2146669 TCTCCCCCTTAATCAAAA-AATT
1 TCTCCCCCTTAAT-AAAATAATT
2146691 TCTCCCCCTTAATAAAATAATT
1 TCTCCCCCTTAATAAAATAATT
2146713 T
1 T
2146714 AACAATTTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.36, C:0.29, G:0.00, T:0.36
Consensus pattern (22 bp):
TCTCCCCCTTAATAAAATAATT
Found at i:2148120 original size:21 final size:21
Alignment explanation
Indices: 2148089--2148140 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
2148079 GCTGCTAGTG
* *
2148089 TGGGGGCTGCCCGGTTGTGACC
1 TGGGGG-TGCCCAGTCGTGACC
2148111 TGGGGGTG-CCAGTCGTGACC
1 TGGGGGTGCCCAGTCGTGACC
2148131 TGGTGGGTGC
1 TGG-GGGTGC
2148141 TGCCTAGAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 13 0.50
21 7 0.27
22 6 0.23
ACGTcount: A:0.06, C:0.23, G:0.48, T:0.23
Consensus pattern (21 bp):
TGGGGGTGCCCAGTCGTGACC
Found at i:2148593 original size:13 final size:13
Alignment explanation
Indices: 2148575--2148599 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2148565 ATAAACATTT
2148575 TGTATCGATACAA
1 TGTATCGATACAA
2148588 TGTATCGATACA
1 TGTATCGATACA
2148600 GAGAATGTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2154777 original size:13 final size:13
Alignment explanation
Indices: 2154759--2154784 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2154749 AGTTTAGGGA
2154759 TGTATCGATACAT
1 TGTATCGATACAT
2154772 TGTATCGATACAT
1 TGTATCGATACAT
2154785 ATTGGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2154781 original size:34 final size:32
Alignment explanation
Indices: 2154738--2154802 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 32
2154728 TACAAGCCAA
2154738 TGTATCGATACAGT-TTAGGGATGTATCGATACAT
1 TGTATCGATACA-TATT-GGG-TGTATCGATACAT
2154772 TGTATCGATACATATTGGGTGTATCGATACA
1 TGTATCGATACATATTGGGTGTATCGATACA
2154803 AATAGTTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 12 0.40
33 4 0.13
34 14 0.47
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATATTGGGTGTATCGATACAT
Found at i:2154902 original size:13 final size:13
Alignment explanation
Indices: 2154884--2154908 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2154874 ACAGTTGGTC
2154884 ATGTATCGATACA
1 ATGTATCGATACA
2154897 ATGTATCGATAC
1 ATGTATCGATAC
2154909 TGTGCAATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2160917 original size:19 final size:19
Alignment explanation
Indices: 2160874--2160946 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
2160864 CACACCCAGA
*
2160874 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
2160894 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
2160913 TGTATCGATACATGGACAAT
1 TGTATCGATACATGTTC-AT
2160933 TGTATCGATACATG
1 TGTATCGATACATG
2160947 AAACTGGCAG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 17 0.35
20 30 0.62
21 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:2164403 original size:33 final size:33
Alignment explanation
Indices: 2164366--2164433 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
2164356 CGTTACAAGT
* *
2164366 AATGTATCGATACATT-TCATCATGTATCGATAC
1 AATGTATCGAGACATTGT-ACCATGTATCGATAC
2164399 AATGTATCGAGACATTGTACCATGTATCGATAC
1 AATGTATCGAGACATTGTACCATGTATCGATAC
2164432 AA
1 AA
2164434 ATAGTGGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (33 bp):
AATGTATCGAGACATTGTACCATGTATCGATAC
Found at i:2164506 original size:19 final size:19
Alignment explanation
Indices: 2164462--2164517 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
2164452 TTGTTGATCT
*
2164462 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAC
*
2164482 CATGTATCGATACAATGAG
1 CATGTATCGATACAATGAC
*
2164501 CATGTATCGATATAATG
1 CATGTATCGATACAATG
2164518 TATCAATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAC
Found at i:2166141 original size:139 final size:139
Alignment explanation
Indices: 2165927--2166209 Score: 548
Period size: 139 Copynumber: 2.0 Consensus size: 139
2165917 TCGACGAAGA
2165927 TGAAATACGCGAGGTTAGGCCTTTGACCGGTTCGAATCATATGCAGCCACCAATAATCAGAGTTA
1 TGAAATACGCGAGGTTAGGCCTTTGACCGGTTCGAATCATATGCAGCCACCAATAATCAGAGTTA
* *
2165992 TTGAGGGTGGATTATTGTGTATCGAACAGTCGAAGGATATGTATGATGAGAAGGTGGAGGTATCG
66 CTGAGGGTGGATTATTGTGTACCGAACAGTCGAAGGATATGTATGATGAGAAGGTGGAGGTATCG
2166057 ATCATGTGG
131 ATCATGTGG
2166066 TGAAATACGCGAGGTTAGGCCTTTGACCGGTTCGAATCATATGCAGCCACCAATAATCAGAGTTA
1 TGAAATACGCGAGGTTAGGCCTTTGACCGGTTCGAATCATATGCAGCCACCAATAATCAGAGTTA
2166131 CTGAGGGTGGATTATTGTGTACCGAACAGTCGAAGGATATGTATGATGAGAAGGTGGAGGTATCG
66 CTGAGGGTGGATTATTGTGTACCGAACAGTCGAAGGATATGTATGATGAGAAGGTGGAGGTATCG
2166196 ATCATGTGG
131 ATCATGTGG
2166205 TGAAA
1 TGAAA
2166210 GACGTGTGGC
Statistics
Matches: 142, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
139 142 1.00
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (139 bp):
TGAAATACGCGAGGTTAGGCCTTTGACCGGTTCGAATCATATGCAGCCACCAATAATCAGAGTTA
CTGAGGGTGGATTATTGTGTACCGAACAGTCGAAGGATATGTATGATGAGAAGGTGGAGGTATCG
ATCATGTGG
Found at i:2173380 original size:13 final size:13
Alignment explanation
Indices: 2173362--2173392 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2173352 ACATTTCATC
2173362 ATGTATCGATACA
1 ATGTATCGATACA
2173375 ATGTATCGATACA
1 ATGTATCGATACA
*
2173388 TTGTA
1 ATGTA
2173393 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2173382 original size:33 final size:33
Alignment explanation
Indices: 2173345--2173408 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 33
2173335 ACAAGTAATA
*
2173345 TATCGATACATT-TCATCATGTATCGATACAATG
1 TATCGATACATTGT-ACCATGTATCGATACAATG
2173378 TATCGATACATTGTACCATGTATCGATACAA
1 TATCGATACATTGTACCATGTATCGATACAA
2173409 ACAGTTGTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (33 bp):
TATCGATACATTGTACCATGTATCGATACAATG
Found at i:2173476 original size:13 final size:13
Alignment explanation
Indices: 2173458--2173484 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2173448 ACAACTGTCC
2173458 ATGTATCGATACA
1 ATGTATCGATACA
2173471 ATGTATCGATACA
1 ATGTATCGATACA
2173484 A
1 A
2173485 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2175826 original size:23 final size:23
Alignment explanation
Indices: 2175812--2175859 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
2175802 ACATAGCTTA
2175812 GGATGAAACCATAACAAATGCAT
1 GGATGAAACCATAACAAATGCAT
*
2175835 GGATGAAACTATAACAAATGCAT
1 GGATGAAACCATAACAAATGCAT
2175858 GG
1 GG
2175860 CATAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.19
Consensus pattern (23 bp):
GGATGAAACCATAACAAATGCAT
Found at i:2177080 original size:20 final size:20
Alignment explanation
Indices: 2177055--2177106 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
2177045 ATGAACAGTA
*
2177055 AATGTATCGATACA-TGTGTG
1 AATGTATCGATACAGT-TGTC
*
2177075 AATGTATCGATACAGTTTTC
1 AATGTATCGATACAGTTGTC
2177095 AATGTATCGATA
1 AATGTATCGATA
2177107 ACTTCTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (20 bp):
AATGTATCGATACAGTTGTC
Found at i:2178066 original size:19 final size:21
Alignment explanation
Indices: 2178041--2178095 Score: 78
Period size: 19 Copynumber: 2.7 Consensus size: 21
2178031 ACATACTGCC
**
2178041 TTGTATCGATACATGTTC-AA
1 TTGTATCGATACATGGACAAA
2178061 -TGTATCGATACATGGACAAA
1 TTGTATCGATACATGGACAAA
2178081 TTGTATCGATACATG
1 TTGTATCGATACATG
2178096 AAATTGGCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 15 0.48
20 2 0.06
21 14 0.45
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.35
Consensus pattern (21 bp):
TTGTATCGATACATGGACAAA
Found at i:2178087 original size:21 final size:20
Alignment explanation
Indices: 2178041--2178177 Score: 77
Period size: 20 Copynumber: 6.7 Consensus size: 20
2178031 ACATACTGCC
**
2178041 TTGTATCGATACATGTTCAA
1 TTGTATCGATACATGGACAA
2178061 -TGTATCGATACATGGACAAA
1 TTGTATCGATACATGGAC-AA
2178081 TTGTATCGATACAT-GA-AA
1 TTGTATCGATACATGGACAA
* * * * *
2178099 TTGGCAATAGCTACCCTAT-CACTAT
1 TT-G-TATCGATA--C-ATGGAC-AA
2178124 TTGTATCGATACATGGTACAA
1 TTGTATCGATACATGG-ACAA
* *
2178145 -TGTATCGATACATGAAGAA
1 TTGTATCGATACATGGACAA
*
2178164 ATGTATCGATACAT
1 TTGTATCGATACAT
2178178 AGCTTGTAAC
Statistics
Matches: 91, Mismatches: 14, Indels: 24
0.71 0.11 0.19
Matches are distributed among these distances:
18 4 0.04
19 19 0.21
20 38 0.42
21 15 0.16
22 3 0.03
23 8 0.09
24 1 0.01
25 3 0.03
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (20 bp):
TTGTATCGATACATGGACAA
Found at i:2185468 original size:19 final size:18
Alignment explanation
Indices: 2185443--2185510 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 18
2185433 AATTCAACGA
2185443 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
2185461 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
2185477 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
2185493 TATTGTATCGATATATAA
1 T-TTGTATCGATACATAA
2185511 TTAGCTACTG
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
18 1 0.02
19 26 0.62
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:2185481 original size:32 final size:32
Alignment explanation
Indices: 2185445--2185505 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
2185435 TTCAACGATT
*
2185445 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2185477 TGTATCGATACATAAGTATTGTATCGATA
1 TGTATCGATACATAAGTATTGTATCGATA
2185506 TATAATTAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2185482 original size:13 final size:13
Alignment explanation
Indices: 2185464--2185488 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2185454 ACATAAGTGT
2185464 TGTATCGATACAA
1 TGTATCGATACAA
2185477 TGTATCGATACA
1 TGTATCGATACA
2185489 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2186515 original size:20 final size:20
Alignment explanation
Indices: 2186478--2186516 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2186468 ACAACCTTGA
*
2186478 TCATGCATTTTTACCATGTT
1 TCATGCATTTATACCATGTT
*
2186498 TCATGCATTTATAGCATGT
1 TCATGCATTTATACCATGT
2186517 CCACCACCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (20 bp):
TCATGCATTTATACCATGTT
Found at i:2191368 original size:21 final size:21
Alignment explanation
Indices: 2191344--2191399 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
2191334 AAATTATCCA
2191344 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
2191365 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
2191386 AATGTATCGATACA
1 AATGTATCGATACA
2191400 GGGTCCCAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:2191459 original size:19 final size:19
Alignment explanation
Indices: 2191435--2191502 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
2191425 AATTCAACAA
2191435 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2191454 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2191469 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2191486 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2191503 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2191474 original size:13 final size:13
Alignment explanation
Indices: 2191456--2191480 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2191446 ACATAAGTTT
2191456 TGTATCGATACAA
1 TGTATCGATACAA
2191469 TGTATCGATACA
1 TGTATCGATACA
2191481 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2191478 original size:32 final size:32
Alignment explanation
Indices: 2191437--2191499 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2191427 TTCAACAATT
*
2191437 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2191469 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2191500 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2191560 original size:13 final size:13
Alignment explanation
Indices: 2191542--2191567 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2191532 CATTTTTCTG
2191542 TGTATCGATACAT
1 TGTATCGATACAT
2191555 TGTATCGATACAT
1 TGTATCGATACAT
2191568 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2191564 original size:33 final size:33
Alignment explanation
Indices: 2191522--2191588 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2191512 GCCAAGGAAA
***
2191522 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
2191555 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
2191588 T
1 T
2191589 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:2193179 original size:11 final size:11
Alignment explanation
Indices: 2193163--2193200 Score: 67
Period size: 11 Copynumber: 3.4 Consensus size: 11
2193153 TTCTTTTTCA
2193163 AAAAAAAAAAC
1 AAAAAAAAAAC
2193174 AAAAAAAAAAC
1 AAAAAAAAAAC
2193185 AAAACAAAAAAC
1 AAAA-AAAAAAC
2193197 AAAA
1 AAAA
2193201 CAAAGAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:2193183 original size:16 final size:16
Alignment explanation
Indices: 2193162--2193210 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
2193152 ATTCTTTTTC
2193162 AAAAAAAAAAACAAAA
1 AAAAAAAAAAACAAAA
*
2193178 AAAAAACAAAACAAAA
1 AAAAAAAAAAACAAAA
* * *
2193194 AACAAAACAAAGAAAA
1 AAAAAAAAAAACAAAA
2193210 A
1 A
2193211 GAGAGAAAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAACAAAA
Found at i:2193201 original size:12 final size:12
Alignment explanation
Indices: 2193161--2193204 Score: 72
Period size: 12 Copynumber: 3.8 Consensus size: 12
2193151 CATTCTTTTT
*
2193161 CAAAAAAAAAAA
1 CAAAACAAAAAA
2193173 CAAAA-AAAAAA
1 CAAAACAAAAAA
2193184 CAAAACAAAAAA
1 CAAAACAAAAAA
2193196 CAAAACAAA
1 CAAAACAAA
2193205 GAAAAAGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.35
12 20 0.65
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (12 bp):
CAAAACAAAAAA
Found at i:2194347 original size:55 final size:54
Alignment explanation
Indices: 2194185--2194832 Score: 706
Period size: 55 Copynumber: 11.4 Consensus size: 54
2194175 TCCTTCCACC
* * * * *
2194185 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCGAGTTGGTGGCACC
1 TTCAGTCCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCACT
* * * *
2194244 TTCAGTTCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCC
1 TTCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCA-CT
*
2194305 TTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATT
1 TTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACT
*
2194359 TTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATT
1 TT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACT
*
2194414 TTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATT
1 TT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACT
*
2194469 TTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATT
1 TT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACT
* *
2194524 TTCCAGTCCTCAGAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACC
1 TT-CAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACT
* * *
2194579 TTCAGTCCTCAAAGAAC-GAGACACATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTCAGTCCTCAAAGAGCAG-GACAC-----CTTTCAAAGCCCACACAAGTTGGTGGCACT
* *
2194638 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACT
1 TTCAGTCCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCACT
* * * *
2194697 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCGAGTTGGTGGCACCT
1 TTCAGTCCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCA-CT
* *
2194757 TTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTT
1 TTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC-T
* * *
2194812 TTTACTCCTCAATGAGCAGGA
1 TTCAGTCCTCAAAGAGCAGGA
2194833 TACACTTTAT
Statistics
Matches: 538, Mismatches: 27, Indels: 52
0.87 0.04 0.08
Matches are distributed among these distances:
53 1 0.00
54 22 0.04
55 285 0.53
56 2 0.00
58 2 0.00
59 150 0.28
60 48 0.09
61 23 0.04
64 4 0.01
65 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (54 bp):
TTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACT
Found at i:2194388 original size:27 final size:27
Alignment explanation
Indices: 2194358--2194498 Score: 74
Period size: 27 Copynumber: 5.1 Consensus size: 27
2194348 TTGGTGGCAT
2194358 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
2194385 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
2194413 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
2194440 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
2194468 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
2194495 TTTC
1 TTTC
2194499 AAAGCCCACA
Statistics
Matches: 76, Mismatches: 28, Indels: 20
0.61 0.23 0.16
Matches are distributed among these distances:
25 6 0.08
26 10 0.13
27 24 0.32
28 20 0.26
29 10 0.13
30 6 0.08
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:2197451 original size:51 final size:53
Alignment explanation
Indices: 2197387--2197728 Score: 187
Period size: 52 Copynumber: 6.5 Consensus size: 53
2197377 AGTTTCTCAA
* * * *
2197387 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
2197438 TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
* * * * *** * *
2197492 TTCTTCACAATCGGGGATACTCCAACCCCG--CTAATCATCGGGGATACTCCAACCCCGT
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTAT-TTC-CAAAAACACCAA-----T
* * * * * *
2197550 TAT-TTC-CGA--GGGGATACTCTAACCCCGGTTTTA--TCGCTAAAACACTAAT
1 T-TCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAAT
* * *
2197599 TT-TTCCACAATCGGGGATACTCCAA-TCTCGGTTTTATTTTC-AAAACGCCAATT
1 TTCTT-CACAATCGGGGATACTCCAACTC-CGATTTTATTTCCAAAAACACCAA-T
* *
2197652 TTCCTT--TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAAT
1 TT-CTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
*
2197704 TT-TTCACAATCGAGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
2197729 CTCGTTATTT
Statistics
Matches: 222, Mismatches: 40, Indels: 57
0.70 0.13 0.18
Matches are distributed among these distances:
48 3 0.01
49 3 0.01
50 6 0.03
51 34 0.15
52 79 0.36
53 32 0.14
54 33 0.15
55 22 0.10
57 4 0.02
58 5 0.02
59 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.32
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:2197748 original size:28 final size:30
Alignment explanation
Indices: 2197712--2197788 Score: 99
Period size: 28 Copynumber: 2.7 Consensus size: 30
2197702 ATTTTTCACA
* *
2197712 ATCGAGGATACTCCAACCTCGTTA-TTTC-
1 ATCGGGGATACTCCAACCCCGTTACTTTCG
2197740 ATCGGGGATACTCCAACCCCGTTACTTTCG
1 ATCGGGGATACTCCAACCCCGTTACTTTCG
*
2197770 A--GGGGATACTCCAATCCCG
1 ATCGGGGATACTCCAACCCCG
2197789 ATTTTTTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 39 0.89
29 4 0.09
30 1 0.02
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.26
Consensus pattern (30 bp):
ATCGGGGATACTCCAACCCCGTTACTTTCG
Found at i:2197757 original size:212 final size:212
Alignment explanation
Indices: 2197390--2197780 Score: 619
Period size: 212 Copynumber: 1.8 Consensus size: 212
2197380 TTCTCAATTC
* *
2197390 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
2197455 TACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
2197520 CGCTAATCATCGGGGATACTCCAACCCCGTTA-TTTCCGAGGGGATACTCTAACCCCGGTTTTAT
131 CGCTAATCATCGGGGATACTCCAACCCCGTTACTTT-CGAGGGGATACTCTAACCCCGGTTTTAT
2197584 CGCTAAAACACTAATTTT
195 CGCTAAAACACTAATTTT
* * *
2197602 TCCACAATCGGGGATACTCCAA-TCTCGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGGGGATACTCCAACTC-CGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
*
2197666 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* * *
2197729 CTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTTCGAGGGGATACTC
129 CCCGCTA-ATCATCGGGGATACTCCAACCCCGTTACTTTCGAGGGGATACTC
2197781 CAATCCCGAT
Statistics
Matches: 164, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
211 29 0.18
212 97 0.59
213 38 0.23
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (212 bp):
TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGCTAATCATCGGGGATACTCCAACCCCGTTACTTTCGAGGGGATACTCTAACCCCGGTTTTATC
GCTAAAACACTAATTTT
Found at i:2200791 original size:21 final size:21
Alignment explanation
Indices: 2200767--2200807 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2200757 TTATTCATTC
* *
2200767 AATTTTTAAAATTATTAAAAT
1 AATTATTAAAATTATAAAAAT
*
2200788 AATTATTAACATTATAAAAA
1 AATTATTAAAATTATAAAAA
2200808 AGTAAAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
AATTATTAAAATTATAAAAAT
Found at i:2203172 original size:31 final size:33
Alignment explanation
Indices: 2203118--2203179 Score: 94
Period size: 31 Copynumber: 1.9 Consensus size: 33
2203108 ATCAAATATA
2203118 TATTTTTATTAAATATTTATTATATTTAATACT
1 TATTTTTATTAAATATTTATTATATTTAATACT
2203151 TATTTATTATTAAA-A-TT-TTATATTTAATA
1 TATTT-TTATTAAATATTTATTATATTTAATA
2203180 TTTAAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 12 0.43
32 2 0.07
33 6 0.21
34 8 0.29
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (33 bp):
TATTTTTATTAAATATTTATTATATTTAATACT
Found at i:2203174 original size:20 final size:20
Alignment explanation
Indices: 2203151--2203189 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2203141 ATTTAATACT
*
2203151 TATTTATTATTAAAATTTTA
1 TATTTAATATTAAAATTTTA
*
2203171 TATTTAATATTTAAATTTT
1 TATTTAATATTAAAATTTT
2203190 TTTATATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTAATATTAAAATTTTA
Found at i:2205299 original size:2 final size:2
Alignment explanation
Indices: 2205292--2205322 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2205282 AATTAAAAGG
*
2205292 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2205323 AAGTACAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2207997 original size:20 final size:21
Alignment explanation
Indices: 2207952--2207997 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
2207942 TTATTTTAAA
* *
2207952 TATTTTCTTATTTTTCTTTAT
1 TATTTTCTTATTTTTCATGAT
2207973 T-TTTTCTTATTTTT-ATGAT
1 TATTTTCTTATTTTTCATGAT
2207992 TATTTT
1 TATTTT
2207998 AAATTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 4 0.18
20 17 0.77
21 1 0.05
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (21 bp):
TATTTTCTTATTTTTCATGAT
Found at i:2209522 original size:3 final size:3
Alignment explanation
Indices: 2209514--2209544 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
2209504 GATACACCAG
2209514 AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2209545 CAACAACAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2209532 original size:14 final size:14
Alignment explanation
Indices: 2209515--2209543 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2209505 ATACACCAGA
2209515 ATAATAATAATAAT
1 ATAATAATAATAAT
2209529 ATAATAATAATAAT
1 ATAATAATAATAAT
2209543 A
1 A
2209544 ACAACAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:2210291 original size:3 final size:3
Alignment explanation
Indices: 2210283--2210322 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
2210273 AATTAAACAC
2210283 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
2210323 GATGTCGAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2210494 original size:16 final size:16
Alignment explanation
Indices: 2210475--2210522 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
2210465 ATTTTAATAA
*
2210475 AAAAATTGAATTAAAT
1 AAAAATTAAATTAAAT
2210491 AAAAATTAAATTAAATT
1 AAAAATTAAATTAAA-T
* *
2210508 AAATATCAAATTAAA
1 AAAAATTAAATTAAA
2210523 ATATAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 14 0.50
17 14 0.50
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (16 bp):
AAAAATTAAATTAAAT
Found at i:2210507 original size:21 final size:22
Alignment explanation
Indices: 2210477--2210522 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
2210467 TTTAATAAAA
*
2210477 AAATTGAATTAAATA-AAAATT
1 AAATTAAATTAAATATAAAATT
*
2210498 AAATTAAATTAAATATCAAATT
1 AAATTAAATTAAATATAAAATT
2210520 AAA
1 AAA
2210523 ATATAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (22 bp):
AAATTAAATTAAATATAAAATT
Found at i:2210526 original size:13 final size:12
Alignment explanation
Indices: 2210483--2210522 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 12
2210473 AAAAAAATTG
*
2210483 AATTAAATA-AA
1 AATTAAATATCA
2210494 AATTAAAT-T-A
1 AATTAAATATCA
2210504 AATTAAATATCA
1 AATTAAATATCA
2210516 AATTAAA
1 AATTAAA
2210523 ATATAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 9 0.35
11 9 0.35
12 8 0.31
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (12 bp):
AATTAAATATCA
Found at i:2211303 original size:20 final size:21
Alignment explanation
Indices: 2211266--2211309 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
2211256 TTAAGTATAG
*
2211266 ATATTTTTTAAGTATAAAAATA
1 ATATTTTTCAAG-ATAAAAATA
2211288 ATATTTTTCAAG-TAAAAATA
1 ATATTTTTCAAGATAAAAATA
2211308 AT
1 AT
2211310 TCAAAGTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.48
22 11 0.52
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (21 bp):
ATATTTTTCAAGATAAAAATA
Found at i:2211442 original size:13 final size:13
Alignment explanation
Indices: 2211424--2211448 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2211414 ATATTACTTA
2211424 GTATCGATACATT
1 GTATCGATACATT
2211437 GTATCGATACAT
1 GTATCGATACAT
2211449 GTTTTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:2212715 original size:20 final size:20
Alignment explanation
Indices: 2212690--2212744 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
2212680 TAATAGATAC
*
2212690 ATTGTATCGATACATGATGA
1 ATTGTATCGATACATGATCA
*
2212710 ATTGTATCGATACATGGTCA
1 ATTGTATCGATACATGATCA
*
2212730 ATTATATCGATACAT
1 ATTGTATCGATACAT
2212745 TGAGCCTAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATGATCA
Found at i:2213249 original size:33 final size:31
Alignment explanation
Indices: 2213176--2213333 Score: 130
Period size: 33 Copynumber: 5.0 Consensus size: 31
2213166 AAGTGATTAA
* *
2213176 GAGGTACTATCTTAGTC-TTG-AAAGATAGTG
1 GAGGTTCTATCTTAGCCTTTGAAAAGATAG-G
2213206 TAGAGGTTCTATCTTAGCCTTTTGTAAAAGATAGG
1 --GAGGTTCTATCTTAGCC-TTTG-AAAAGATAGG
2213241 GAGGTTCTATCTTAG-C-TTGCAAAAGATAGGG
1 GAGGTTCTATCTTAGCCTTTG-AAAAGATA-GG
* **
2213272 AAGAGGTTTTATCTTAGCCCGTGAAAAGATAGG
1 --GAGGTTCTATCTTAGCCTTTGAAAAGATAGG
*
2213305 GAGGTTTCTATCTTATCC-TTG-AAAGATAG
1 GAGG-TTCTATCTTAGCCTTTGAAAAGATAG
2213334 TGTTGTAAGG
Statistics
Matches: 108, Mismatches: 8, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
30 19 0.18
31 8 0.07
32 27 0.25
33 31 0.29
34 12 0.11
35 3 0.03
36 8 0.07
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (31 bp):
GAGGTTCTATCTTAGCCTTTGAAAAGATAGG
Found at i:2213332 original size:64 final size:64
Alignment explanation
Indices: 2213176--2213333 Score: 194
Period size: 66 Copynumber: 2.4 Consensus size: 64
2213166 AAGTGATTAA
* * * **
2213176 GAGGTACTATCTTAGTCTTGAAAGATAGTGTAGAGGTTCTATCTTAGCCTTTTGTAAAAGATAGG
1 GAGGTTCTATCTTA-TCTTGAAAGATAGGGAAGAGGTTCTATCTTAGCCTCGTGTAAAAGATAGG
* *
2213241 GAGGTTCTATCTTAGCTTGCAAAAGATAGGGAAGAGGTTTTATCTTAGCC-CGTG-AAAAGATAG
1 GAGGTTCTATCTTATCTTG--AAAGATAGGGAAGAGGTTCTATCTTAGCCTCGTGTAAAAGATAG
2213304 G
64 G
2213305 GAGGTTTCTATCTTATCCTTGAAAGATAG
1 GAGG-TTCTATCTTAT-CTTGAAAGATAG
2213334 TGTTGTAAGG
Statistics
Matches: 81, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
64 26 0.32
65 25 0.31
66 30 0.37
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (64 bp):
GAGGTTCTATCTTATCTTGAAAGATAGGGAAGAGGTTCTATCTTAGCCTCGTGTAAAAGATAGG
Found at i:2217593 original size:3 final size:3
Alignment explanation
Indices: 2217578--2217609 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
2217568 AACCATCAAA
*
2217578 GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
2217610 AGTTGACTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.34, T:0.28
Consensus pattern (3 bp):
GAT
Found at i:2223348 original size:13 final size:13
Alignment explanation
Indices: 2223330--2223356 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2223320 ACAATGTTCT
2223330 TTGTATCGATACA
1 TTGTATCGATACA
2223343 TTGTATCGATACA
1 TTGTATCGATACA
2223356 T
1 T
2223357 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2225880 original size:20 final size:21
Alignment explanation
Indices: 2225831--2225888 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
2225821 GTCAAAACCC
*
2225831 TAGAAAGTATCGATACATACT
1 TAGATAGTATCGATACATACT
2225852 TAGAT-GTATCGATACATA-T
1 TAGATAGTATCGATACATACT
*
2225871 T-GCTTAGTATCGATACAT
1 TAG-ATAGTATCGATACAT
2225889 TGTATCGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
18 1 0.03
19 3 0.09
20 25 0.76
21 4 0.12
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (21 bp):
TAGATAGTATCGATACATACT
Found at i:2225895 original size:13 final size:13
Alignment explanation
Indices: 2225877--2225901 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2225867 ATATTGCTTA
2225877 GTATCGATACATT
1 GTATCGATACATT
2225890 GTATCGATACAT
1 GTATCGATACAT
2225902 GCTCATTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:2226018 original size:13 final size:13
Alignment explanation
Indices: 2225986--2226026 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
2225976 GATACATGGC
2225986 ACATTGTATCGAT
1 ACATTGTATCGAT
2225999 ACA-TGTATCGAT
1 ACATTGTATCGAT
2226011 ACATTGTATCGAT
1 ACATTGTATCGAT
2226024 ACA
1 ACA
2226027 CGAAGAATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 12 0.44
13 15 0.56
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:2227831 original size:12 final size:12
Alignment explanation
Indices: 2227814--2227838 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2227804 TAATCAAATT
2227814 TTTTTCAATCCC
1 TTTTTCAATCCC
2227826 TTTTTCAATCCC
1 TTTTTCAATCCC
2227838 T
1 T
2227839 CATCCACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.32, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTTCAATCCC
Found at i:2228641 original size:21 final size:21
Alignment explanation
Indices: 2228615--2228657 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
2228605 GAGTTTGCAT
2228615 AAAATTTGTATTAAAGGGGAG
1 AAAATTTGTATTAAAGGGGAG
2228636 AAAATTTGTATTAAAGGGGAG
1 AAAATTTGTATTAAAGGGGAG
2228657 A
1 A
2228658 GCTTGTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (21 bp):
AAAATTTGTATTAAAGGGGAG
Found at i:2229566 original size:13 final size:13
Alignment explanation
Indices: 2229548--2229574 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2229538 AAAACTCACT
2229548 TTGTATCGATACA
1 TTGTATCGATACA
2229561 TTGTATCGATACA
1 TTGTATCGATACA
2229574 T
1 T
2229575 GATGAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2229585 original size:20 final size:20
Alignment explanation
Indices: 2229560--2229614 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
2229550 GTATCGATAC
*
2229560 ATTGTATCGATACATGATGA
1 ATTGTATCGATACATGATCA
*
2229580 ATTGTATCGATACATGGTCA
1 ATTGTATCGATACATGATCA
*
2229600 ATTATATCGATACAT
1 ATTGTATCGATACAT
2229615 TGAGCCCAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATGATCA
Found at i:2230087 original size:30 final size:33
Alignment explanation
Indices: 2230045--2230203 Score: 160
Period size: 30 Copynumber: 5.0 Consensus size: 33
2230035 CAAGTGATTG
2230045 AGAGGTTCTATCTTAGCCTTG-AAAGATAGTGT
1 AGAGGTTCTATCTTAGCCTTGAAAAGATAGTGT
2230077 AGA-G-TCTATCTTAGCCTTTGTAAAAGATAG-G-
1 AGAGGTTCTATCTTAGCC-TTG-AAAAGATAGTGT
* * * *
2230108 -GATGTTTTATCTTAGCC-TGCAAAAGATAGGGA
1 AGAGGTTCTATCTTAGCCTTG-AAAAGATAGTGT
2230140 AGAGGTTCTATCTTAGCCTGTGAAAAGATA-TG-
1 AGAGGTTCTATCTTAGCCT-TGAAAAGATAGTGT
2230172 -GAGGTTTCTATCTTAGCCTTG-AAAGATAGTGT
1 AGAGG-TTCTATCTTAGCCTTGAAAAGATAGTGT
2230204 TGTAAGGTTA
Statistics
Matches: 109, Mismatches: 5, Indels: 26
0.78 0.04 0.19
Matches are distributed among these distances:
30 32 0.29
31 14 0.13
32 29 0.27
33 24 0.22
34 8 0.07
35 2 0.02
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.33
Consensus pattern (33 bp):
AGAGGTTCTATCTTAGCCTTGAAAAGATAGTGT
Found at i:2230156 original size:65 final size:61
Alignment explanation
Indices: 2230046--2230200 Score: 188
Period size: 65 Copynumber: 2.5 Consensus size: 61
2230036 AAGTGATTGA
* * *
2230046 GAGG-TTCTATCTTAGCCTTGAAAGATAGTGTAGAGTCTATCTTAGCCTTTGTAAAAGATAGG
1 GAGGTTTCTATCTTAGCC-TGAAAGATAGGGAAGAGTCTATCTTAGCCTGTG-AAAAGATAGG
* *
2230108 GATGTTT-TATCTTAGCCTGCAAAAGATAGGGAAGAGGTTCTATCTTAGCCTGTGAAAAGATATG
1 GAGGTTTCTATCTTAGCCTG--AAAGATAGGGAAGA-G-TCTATCTTAGCCTGTGAAAAGATAGG
2230172 GAGGTTTCTATCTTAGCCTTGAAAGATAG
1 GAGGTTTCTATCTTAGCC-TGAAAGATAG
2230201 TGTTGTAAGG
Statistics
Matches: 80, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
61 2 0.03
62 13 0.16
63 14 0.17
64 24 0.30
65 25 0.31
66 2 0.03
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.33
Consensus pattern (61 bp):
GAGGTTTCTATCTTAGCCTGAAAGATAGGGAAGAGTCTATCTTAGCCTGTGAAAAGATAGG
Found at i:2235434 original size:44 final size:43
Alignment explanation
Indices: 2235341--2235433 Score: 134
Period size: 43 Copynumber: 2.2 Consensus size: 43
2235331 AAGTAGGACG
* *
2235341 CCTTTTTCTTTTTAAAGCCCATACAAGCTGGTGGCATCTCTTT
1 CCTTTTTCTTTTCAAAGCCCACACAAGCTGGTGGCATCTCTTT
*
2235384 CCTTTTTCTTTTGCAAAGCCCACACAAGCTGGTGGCA-CTTTTT
1 CCTTTTTCTTTT-CAAAGCCCACACAAGCTGGTGGCATCTCTTT
*
2235427 ACTTTTT
1 CCTTTTT
2235434 TTAGTTCTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 23 0.51
44 22 0.49
ACGTcount: A:0.18, C:0.26, G:0.14, T:0.42
Consensus pattern (43 bp):
CCTTTTTCTTTTCAAAGCCCACACAAGCTGGTGGCATCTCTTT
Found at i:2235556 original size:71 final size:70
Alignment explanation
Indices: 2235386--2235875 Score: 362
Period size: 71 Copynumber: 6.9 Consensus size: 70
2235376 ATCTCTTTCC
* * * ** *
2235386 TTTTTCTTTTGCAAAGCCCACACAAGCTGGTGGCACTTTTTACTTTTTTTAGTTCTCAAAGAGC-
1 TTTTTCTTTT-TAAAGGCCACACAAGCTGGTGGCACCTTTTA-TCCTTTTAGTCCTCAAAGAGCA
2235450 --AAG-A
64 GGAAGCA
** *
2235454 CGTTT-TTTTTAAAGGCCACACAAGCTGGTGGCACCCATTTTATCCTTTTAGTCCTCAAAAAGCA
1 TTTTTCTTTTTAAAGGCCACACAAGCTGGTGGCA-CC-TTTTATCCTTTTAGTCCTCAAAGAGCA
2235518 GGAAGCA
64 GGAAGCA
*
2235525 TTTTTCTTTTTAAA-GCCACACAAGCTGGTGGCACCTCTTTTATCCTTTCAGTCCTCAAAGA-CT
1 TTTTTCTTTTTAAAGGCCACACAAGCTGGTGGCA-C-CTTTTATCCTTTTAGTCCTCAAAGAGC-
* *
2235588 AGGATGCTTTCC
63 AGGAAG----CA
* * * * * *
2235600 TTTTTATTTTTCAAAGCCCACATAAGTTGGTGGCACCCTTTA-CCTTTTTAGTCCTCAAAGTGC-
1 TTTTTCTTTTT-AAAGGCCACACAAGCTGGTGGCACCTTTTATCC-TTTTAGTCCTCAAAGAGCA
2235663 --AAG-A
64 GGAAGCA
** * * * * *
2235667 TGCTT-TTTTCAAAGCCCACACAAGTTAGTGGCACCTTTTATCCCTTTTCAGTTCTCAAAGAGCA
1 TTTTTCTTTTTAAAGGCCACACAAGCTGGTGGCACCTTTTAT-CCTTTT-AGTCCTCAAAGAGCA
* *
2235731 GGACGCC
64 GGAAGCA
* *
2235738 TTTTTCTTTTTAAAGGCCACACAAACTGGTAGCACCTTATTTATCCTTGTTAGTCCTCAAAGAGC
1 TTTTTCTTTTTAAAGGCCACACAAGCTGGTGGCACC-T-TTTATCCTT-TTAGTCCTCAAAGAGC
* * *
2235803 AAGACGCG
63 AGGAAGCA
** * * * *
2235811 TTTTTC-TTTTAAATCCCACATAAGTTGGTGGCACTTTTTATCCCTTTT-GTCCTCACAGAGCAG
1 TTTTTCTTTTTAAAGGCCACACAAGCTGGTGGCACCTTTTAT-CCTTTTAGTCCTCAAAGAGCAG
2235874 GA
65 GA
2235876 CTTCTTGCTT
Statistics
Matches: 339, Mismatches: 54, Indels: 57
0.75 0.12 0.13
Matches are distributed among these distances:
65 27 0.08
66 30 0.09
67 39 0.12
68 8 0.02
69 15 0.04
70 13 0.04
71 60 0.18
72 57 0.17
73 30 0.09
74 9 0.03
75 30 0.09
76 5 0.01
77 16 0.05
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (70 bp):
TTTTTCTTTTTAAAGGCCACACAAGCTGGTGGCACCTTTTATCCTTTTAGTCCTCAAAGAGCAGG
AAGCA
Found at i:2235748 original size:213 final size:210
Alignment explanation
Indices: 2235380--2235915 Score: 593
Period size: 213 Copynumber: 2.5 Consensus size: 210
2235370 GGTGGCATCT
* * * * *
2235380 CTTTCCTTTTTCTTTTGCAAAGCCCACACAAGCTGGTGGCACTTTTTACTTTTTTTAGTTCTCAA
1 CTTTCCTTTTT-TTTTTCAAAGCCCACATAAGTTGGTGGCACTTTTTAC-CTTTTTAGTCCTCAA
* * * * * *
2235445 AGAGCAAGACGTTTTTTTTAAAGGCCACACAAGCTGGTGGCACCCATTTTATCCTTTTAGTCCTC
64 AGAGCAAGATGCTTTTTTCAAAGCCCACACAAGTTAGTGGCA-CC-TTTTATCCTTTTAGTCCTC
* *
2235510 AAAAAGCAGGAAGCATTTTTCTTTTTAAA-GCCACACAAGCTGGTGGCACCTCT-TTTATCCTT-
127 AAAAAGCAGGAAGCATTTTTCTTTTTAAAGGCCACACAAACTGGTAGCACCT-TATTTATCCTTG
*
2235572 TCAGTCCTCAAAGA-CTAGGA
191 TCAGTCCTCAAAGAGC-AAGA
**
2235592 TGCTTTCCTTTTTATTTTTCAAAGCCCACATAAGTTGGTGGCACCCTTTACCTTTTTAGTCCTCA
1 --CTTTCCTTTTT-TTTTTCAAAGCCCACATAAGTTGGTGGCACTTTTTACCTTTTTAGTCCTCA
* *
2235657 AAGTGCAAGATGCTTTTTTCAAAGCCCACACAAGTTAGTGGCACCTTTTATCCCTTTTCAGTTCT
63 AAGAGCAAGATGCTTTTTTCAAAGCCCACACAAGTTAGTGGCACCTTTTAT-CCTTTT-AGTCCT
* * *
2235722 CAAAGAGCAGGACGCCTTTTTCTTTTTAAAGGCCACACAAACTGGTAGCACCTTATTTATCCTTG
126 CAAAAAGCAGGAAGCATTTTTCTTTTTAAAGGCCACACAAACTGGTAGCACCTTATTTATCCTTG
*
2235787 TTAGTCCTCAAAGAGCAAGA
191 TCAGTCCTCAAAGAGCAAGA
* * * * * *
2235807 C--GCGTTTTTCTTTT-AAATCCCACATAAGTTGGTGGCACTTTTTATCCCTTTT-GTCCTCACA
1 CTTTCCTTTTTTTTTTCAAAGCCCACATAAGTTGGTGGCACTTTTTA-CCTTTTTAGTCCTCAAA
* * *
2235868 GAGCAGGACTTCTTGCTTTCTCAAAGCCCACACAAATTAGTGGCACCT
65 GAGCAAGA-TGCTT--TTT-TCAAAGCCCACACAAGTTAGTGGCACCT
2235916 ATCTACTTCA
Statistics
Matches: 276, Mismatches: 35, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
209 41 0.15
210 14 0.05
211 12 0.04
212 11 0.04
213 109 0.39
214 72 0.26
215 16 0.06
216 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (210 bp):
CTTTCCTTTTTTTTTTCAAAGCCCACATAAGTTGGTGGCACTTTTTACCTTTTTAGTCCTCAAAG
AGCAAGATGCTTTTTTCAAAGCCCACACAAGTTAGTGGCACCTTTTATCCTTTTAGTCCTCAAAA
AGCAGGAAGCATTTTTCTTTTTAAAGGCCACACAAACTGGTAGCACCTTATTTATCCTTGTCAGT
CCTCAAAGAGCAAGA
Found at i:2236442 original size:20 final size:20
Alignment explanation
Indices: 2236403--2236456 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
2236393 TTTTATAATT
*
2236403 TGTATCGATACAAGAAGTGAA
1 TGTATCGATAC-ATAAGTGAA
2236424 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
*
2236444 TTTATCGATACAT
1 TGTATCGATACAT
2236457 GTTTAAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 20 0.65
21 11 0.35
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:2237446 original size:20 final size:20
Alignment explanation
Indices: 2237403--2237450 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
2237393 ATTTGCATCA
* * *
2237403 ATACAATAAGTGAATGTTTTG
1 ATAC-ATAAGTGAATATATCG
2237424 ATACATAAGTGAATATATCG
1 ATACATAAGTGAATATATCG
2237444 ATACATA
1 ATACATA
2237451 TCTGAAATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (20 bp):
ATACATAAGTGAATATATCG
Found at i:2237561 original size:51 final size:51
Alignment explanation
Indices: 2237506--2237602 Score: 167
Period size: 51 Copynumber: 1.9 Consensus size: 51
2237496 TCTGGAAAGA
** *
2237506 AAATGTATTGATACATTTTTCGTTGTATCGATACATTCTGGGTTTTAACCT
1 AAATGTATCAATACATTATTCGTTGTATCGATACATTCTGGGTTTTAACCT
2237557 AAATGTATCAATACATTATTCGTTGTATCGATACATTCTGGGTTTT
1 AAATGTATCAATACATTATTCGTTGTATCGATACATTCTGGGTTTT
2237603 TGACTCCATT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.44
Consensus pattern (51 bp):
AAATGTATCAATACATTATTCGTTGTATCGATACATTCTGGGTTTTAACCT
Found at i:2239957 original size:95 final size:96
Alignment explanation
Indices: 2239741--2239958 Score: 282
Period size: 98 Copynumber: 2.2 Consensus size: 96
2239731 AAAATTCCCT
2239741 TCATTGGGGATACTCCAACCCAATTATTCCGAAGGGATACTCCAACCCCATTTTTAAACATTATC
1 TCATTGGGGATACTCCAACCC-ATTATTCCGAAGGGATACTCCAACCCCATTTTTAAACATTATC
2239806 AAGATTTAAACTTTAATTTTGCTTAAATTATCA
65 AAGA-TTAAACTTTAATTTTGCTTAAATTATCA
** ** *
2239839 TTGTTGGGGATACTCCAACCCCATTATTTTG-AGGAGATACTCCAACCCCTTTTTTAAAC-TTAT
1 TCATTGGGGATACTCCAA-CCCATTATTCCGAAGG-GATACTCCAACCCCATTTTTAAACATTAT
* *
2239902 CAAGA-T-AATTCTTAATTTTGCTTAAATTGTCA
64 CAAGATTAAACT-TTAATTTTGCTTAAATTATCA
*
2239934 TCATCGGGGATACTCCAATCCCATT
1 TCATTGGGGATACTCCAA-CCCATT
2239959 CCTCTTAGGG
Statistics
Matches: 106, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
94 3 0.03
95 42 0.40
97 12 0.11
98 46 0.43
99 3 0.03
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (96 bp):
TCATTGGGGATACTCCAACCCATTATTCCGAAGGGATACTCCAACCCCATTTTTAAACATTATCA
AGATTAAACTTTAATTTTGCTTAAATTATCA
Found at i:2239988 original size:95 final size:97
Alignment explanation
Indices: 2239741--2239977 Score: 277
Period size: 95 Copynumber: 2.5 Consensus size: 97
2239731 AAAATTCCCT
* * * *
2239741 TCATTGGGGATACTCCAACCCAATTAT-TCCGAAGGGATACTCCAACCCCATTTTTAAACATTAT
1 TCATCGGGGATACTCCAACCCCATTATCT-TGAGGGGATACTCCAACCCCATTTTTAAACATTAT
2239805 CAAGATTTAAACTTTAATTTTGCTTAAATTATCA
65 CAAGA-TTAAACTTTAATTTTGCTTAAATTATCA
** * * * *
2239839 TTGTTGGGGATACTCCAACCCCATTATTTTGAGGAGATACTCCAACCCCTTTTTTAAAC-TTATC
1 TCATCGGGGATACTCCAACCCCATTATCTTGAGGGGATACTCCAACCCCATTTTTAAACATTATC
* *
2239903 AAGA-T-AATTCTTAATTTTGCTTAAATTGTCA
66 AAGATTAAACT-TTAATTTTGCTTAAATTATCA
* *
2239934 TCATCGGGGATACTCCAATCCCATTCCTCTT-AGGGGATACTCCA
1 TCATCGGGGATACTCCAACCCCATT-ATCTTGAGGGGATACTCCA
2239978 GCCTCGTTTT
Statistics
Matches: 120, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
94 3 0.03
95 54 0.45
96 3 0.03
97 9 0.08
98 50 0.42
99 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.35
Consensus pattern (97 bp):
TCATCGGGGATACTCCAACCCCATTATCTTGAGGGGATACTCCAACCCCATTTTTAAACATTATC
AAGATTAAACTTTAATTTTGCTTAAATTATCA
Found at i:2244472 original size:13 final size:13
Alignment explanation
Indices: 2244454--2244479 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2244444 ACCTAAGTTT
2244454 TGTATCGATACAA
1 TGTATCGATACAA
2244467 TGTATCGATACAA
1 TGTATCGATACAA
2244480 AATTACCCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2244528 original size:20 final size:20
Alignment explanation
Indices: 2244503--2244600 Score: 99
Period size: 20 Copynumber: 4.8 Consensus size: 20
2244493 ACTGCTAAGG
*
2244503 AAATGTATTGATACATTATT
1 AAATGTATCGATACATTATT
**
2244523 AAATGTATCGATACATGCTT
1 AAATGTATCGATACATTATT
*
2244543 ACAATTTTATCGATACATT-TCT
1 A-AA-TGTATCGATACATTAT-T
* *
2244565 TATTGTATCGATACATTATT
1 AAATGTATCGATACATTATT
*
2244585 CAATGTATCGATACAT
1 AAATGTATCGATACAT
2244601 GCAGGCAAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
20 46 0.72
21 5 0.08
22 13 0.20
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (20 bp):
AAATGTATCGATACATTATT
Found at i:2252652 original size:30 final size:31
Alignment explanation
Indices: 2252618--2252853 Score: 318
Period size: 30 Copynumber: 7.5 Consensus size: 31
2252608 ATCCTTCAAA
2252618 TCTTC-TCCAAGTCCACGACTCAGTGGCATC
1 TCTTCTTCCAAGTCCACGACTCAGTGGCATC
2252648 TCTTCTTCCAAGTCCACGACTCAGTGGCATC
1 TCTTCTTCCAAGTCCACGACTCAGTGGCATC
* * *
2252679 TCTTC-TCTAAGTCCACGACTTAATGGCATC
1 TCTTCTTCCAAGTCCACGACTCAGTGGCATC
2252709 TCTT-TTCCAAGTCCACGACTCAGTGGCATCC
1 TCTTCTTCCAAGTCCACGACTCAGTGGCAT-C
* * *
2252740 TTTTTCTTCTAAGTCCATGACTCAGTGGCATCC
1 -TCTTCTTCCAAGTCCACGACTCAGTGGCAT-C
*
2252773 TTTTTCTTCCAAGTCCACGACTCAGTGGCATC
1 -TCTTCTTCCAAGTCCACGACTCAGTGGCATC
2252805 TCTTC-TCCAAGTCCACGACTCAGTGGCATCC
1 TCTTCTTCCAAGTCCACGACTCAGTGGCAT-C
*
2252836 TTTCTCTTCCAAGTCCAC
1 TCT-TCTTCCAAGTCCAC
2252854 AACTTTATGG
Statistics
Matches: 185, Mismatches: 13, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
30 76 0.41
31 38 0.21
32 6 0.03
33 65 0.35
ACGTcount: A:0.19, C:0.34, G:0.15, T:0.32
Consensus pattern (31 bp):
TCTTCTTCCAAGTCCACGACTCAGTGGCATC
Found at i:2252754 original size:33 final size:33
Alignment explanation
Indices: 2252626--2253422 Score: 389
Period size: 34 Copynumber: 24.4 Consensus size: 33
2252616 AATCTTCTCC
* * *
2252626 AAGTCCACGACTCAGTGGCAT-C-TCTTCTTCC
1 AAGTCCACAACTCAGTGGCATCCTTTTTCTTCT
* *
2252657 AAGTCCACGACTCAGTGGCAT-C-TCTTC-TCT
1 AAGTCCACAACTCAGTGGCATCCTTTTTCTTCT
* * *
2252687 AAGTCCACGACTTAATGGCAT-CTCTTTTC--C-
1 AAGTCCACAACTCAGTGGCATCCT-TTTTCTTCT
*
2252717 AAGTCCACGACTCAGTGGCATCCTTTTTCTTCT
1 AAGTCCACAACTCAGTGGCATCCTTTTTCTTCT
** *
2252750 AAGTCCATGACTCAGTGGCATCCTTTTTCTTCC
1 AAGTCCACAACTCAGTGGCATCCTTTTTCTTCT
* * *
2252783 AAGTCCACGACTCAGTGGCAT-C-TCTTC-TCC
1 AAGTCCACAACTCAGTGGCATCCTTTTTCTTCT
* * *
2252813 AAGTCCACGACTCAGTGGCATCCTTTCTCTTCC
1 AAGTCCACAACTCAGTGGCATCCTTTTTCTTCT
* * *
2252846 AAGTCCACAACTTTA-TGGCA-CCTTTTCACCTTTT
1 AAGTCCACAAC-TCAGTGGCATCCTTTT--TCTTCT
* *
2252880 AAGTTCACAACTCTA-TGGCA-CCTTTTTCTTTTCA
1 AAGTCCACAACTC-AGTGGCATCCTTTTTC--TTCT
* * *
2252914 AAGCCCATAACTTCA-TGGCA-CCTTTTTCTTTTCA
1 AAGTCCACAAC-TCAGTGGCATCCTTTTTC--TTCT
* *
2252948 AAGCCCATAACTGC-GTGGCA--C--TTT-TTC-
1 AAGTCCACAACT-CAGTGGCATCCTTTTTCTTCT
** * *
2252975 AAGTCCATGACTCAGTGGCATTCTTTTCCTTCCT
1 AAGTCCACAACTCAGTGGCATCCTTTTTCTT-CT
* * *
2253009 AAAGTCCACGACTCAGTGGCAT-C-TTTTC-CCC
1 -AAGTCCACAACTCAGTGGCATCCTTTTTCTTCT
* * * *
2253040 AATTCCACAACTTC-GTGGCACCCCTTTTCCTTTT
1 AAGTCCACAAC-TCAGTGGCA-TCCTTTTTCTTCT
* * *
2253074 AAGTCCACAACTCAGTGGCA-CATTTTTTTTTCA
1 AAGTCCACAACTCAGTGGCATC-CTTTTTCTTCT
* * *
2253107 AAGCCCACAACTCCA-TGGCACCCTTTTTCCTT-A
1 AAGTCCACAACT-CAGTGGCATCCTTTTT-CTTCT
* * *
2253140 AAGTCCATAACTCAATGGCA-CCATTTTTCCTTTT
1 AAGTCCACAACTCAGTGGCATCC-TTTTT-CTTCT
* * * *
2253174 AAGTCCACAACTCCGTCGCACCCTTTTTCCTTTT
1 AAGTCCACAACTCAGTGGCATCCTTTTT-CTTCT
* *
2253208 AAGTCCACAACTCCGTGGCA-CCTTTTTCTTTTCA
1 AAGTCCACAACTCAGTGGCATCCTTTTTC--TTCT
* * *
2253242 AAGCCCACAACTTTA-TGGCA-CCTTTTCTCCTTTT
1 AAGTCCACAAC-TCAGTGGCATCCTTTT-T-CTTCT
*
2253276 AAGTCCACAACTCCA-TGGCATCCTTTTTCCTTTT
1 AAGTCCACAACT-CAGTGGCATCCTTTTT-CTTCT
* * *
2253310 AAGTCCATAACTCCGTGGCA-CCTTTTTCTTTTCA
1 AAGTCCACAACTCAGTGGCATCCTTTTTC--TTCT
* * *
2253344 AAGCCCATAACTCTA-TGGCA-CTTTTTTCCTT-T
1 AAGTCCACAACTC-AGTGGCATCCTTTTT-CTTCT
* * * * *
2253376 AAGTCCATAACTTATTGGCACCCTTTTTCATTTT
1 AAGTCCACAACTCAGTGGCATCCTTTTTC-TTCT
2253410 AAGTCCACAACTC
1 AAGTCCACAACTC
2253423 CTTGACACCC
Statistics
Matches: 630, Mismatches: 79, Indels: 111
0.77 0.10 0.14
Matches are distributed among these distances:
26 1 0.00
27 16 0.03
28 3 0.00
29 1 0.00
30 85 0.13
31 44 0.07
32 42 0.07
33 161 0.26
34 243 0.39
35 33 0.05
36 1 0.00
ACGTcount: A:0.22, C:0.31, G:0.12, T:0.35
Consensus pattern (33 bp):
AAGTCCACAACTCAGTGGCATCCTTTTTCTTCT
Found at i:2252865 original size:96 final size:94
Alignment explanation
Indices: 2252618--2252853 Score: 352
Period size: 96 Copynumber: 2.5 Consensus size: 94
2252608 ATCCTTCAAA
*
2252618 TCTTCTCCAAGTCCACGACTCAGTGGCAT-CTCTTCTTCCAAGTCCACGACTCAGTGGCAT-C-T
1 TCTTCTCCAAGTCCACGACTCAGTGGCATCCTTTTCTTCCAAGTCCACGACTCAGTGGCATCCTT
* * *
2252680 CTTCTCTAAGTCCACGACTTAATGGCATC
66 TTTCTCCAAGTCCACGACTCAATGGCATC
* * *
2252709 TCTTTTCCAAGTCCACGACTCAGTGGCATCCTTTTTCTTCTAAGTCCATGACTCAGTGGCATCCT
1 TCTTCTCCAAGTCCACGACTCAGTGGCATCC-TTTTCTTCCAAGTCCACGACTCAGTGGCATCCT
*
2252774 TTTTCTTCCAAGTCCACGACTCAGTGGCATC
65 TTTTC-TCCAAGTCCACGACTCAATGGCATC
2252805 TCTTCTCCAAGTCCACGACTCAGTGGCATCCTTTCTCTTCCAAGTCCAC
1 TCTTCTCCAAGTCCACGACTCAGTGGCATCCTTT-TCTTCCAAGTCCAC
2252854 AACTTTATGG
Statistics
Matches: 128, Mismatches: 11, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
91 28 0.22
92 1 0.01
93 27 0.21
94 1 0.01
95 7 0.05
96 64 0.50
ACGTcount: A:0.19, C:0.34, G:0.15, T:0.32
Consensus pattern (94 bp):
TCTTCTCCAAGTCCACGACTCAGTGGCATCCTTTTCTTCCAAGTCCACGACTCAGTGGCATCCTT
TTTCTCCAAGTCCACGACTCAATGGCATC
Found at i:2252932 original size:34 final size:33
Alignment explanation
Indices: 2252709--2253556 Score: 361
Period size: 34 Copynumber: 26.2 Consensus size: 33
2252699 TAATGGCATC
*
2252709 TCTTTTCCAAGTCCACGAC-TCAGTGGCATCCTTTT
1 TCTTTT-CAAGTCCACAACTTCA-TGGCA-CCTTTT
* **
2252744 TCTTCT-AAGTCCATGAC-TCAGTGGCATCCTTTT
1 TCTTTTCAAGTCCACAACTTCA-TGGCA-CCTTTT
* * * *
2252777 TC-TTCCAAGTCCACGAC-TCAGTGGCATC-TCT
1 TCTTTTCAAGTCCACAACTTCA-TGGCACCTTTT
* * *
2252808 TC--TCCAAGTCCACGAC-TCAGTGGCATCCTTTC
1 TCTTTTCAAGTCCACAACTTCA-TGGCA-CCTTTT
* *
2252840 TC-TTCCAAGTCCACAACTTTATGGCACCTTTT
1 TCTTTTCAAGTCCACAACTTCATGGCACCTTTT
* *
2252872 CACCTTTT-AAGTTCACAAC-TCTATGGCACCTTTT
1 --TCTTTTCAAGTCCACAACTTC-ATGGCACCTTTT
* *
2252906 TCTTTTCAAAGCCCATAACTTCATGGCACCTTTT
1 TCTTTTC-AAGTCCACAACTTCATGGCACCTTTT
* * * *
2252940 TCTTTTCAAAGCCCATAACTGCGTGGCA-C----
1 TCTTTTC-AAGTCCACAACTTCATGGCACCTTTT
** *
2252969 T-TTTTCAAGTCCATGAC-TCAGTGGCATTCTTTT
1 TCTTTTCAAGTCCACAACTTCA-TGGCA-CCTTTT
* * * * *
2253002 CCTTCCTAAAGTCCACGAC-TCAGTGGCATC-TTT
1 TCTT-TTCAAGTCCACAACTTCA-TGGCACCTTTT
** * *
2253035 TC--CCCAATTCCACAACTTCGTGGCACCCCTTTT
1 TCTTTTCAAGTCCACAACTTCATGGCA--CCTTTT
* *
2253068 CCTTTT-AAGTCCACAAC-TCAGTGGCACATTTT
1 TCTTTTCAAGTCCACAACTTCA-TGGCACCTTTT
* *
2253100 T-TTTTCAAAGCCCACAACTCCATGGCACCCTTTT
1 TCTTTTC-AAGTCCACAACTTCATGGCA-CCTTTT
* * *
2253134 TC-CTTAAAGTCCATAAC-TCAATGGCACCATTTT
1 TCTTTTCAAGTCCACAACTTC-ATGGCACC-TTTT
* * *
2253167 TCCTTTT-AAGTCCACAACTCCGTCGCACCCTTTT
1 T-CTTTTCAAGTCCACAACTTCATGGCA-CCTTTT
* *
2253201 TCCTTTT-AAGTCCACAACTCCGTGGCACCTTTT
1 T-CTTTTCAAGTCCACAACTTCATGGCACCTTTT
* *
2253234 TCTTTTCAAAGCCCACAACTTTATGGCACCTTTT
1 TCTTTTC-AAGTCCACAACTTCATGGCACCTTTT
*
2253268 CTCCTTTT-AAGTCCACAACTCCATGGCATCCTTTT
1 -T-CTTTTCAAGTCCACAACTTCATGGCA-CCTTTT
* * *
2253303 TCCTTTT-AAGTCCATAACTCCGTGGCACCTTTT
1 T-CTTTTCAAGTCCACAACTTCATGGCACCTTTT
* * *
2253336 TCTTTTCAAAGCCCATAAC-TCTATGGCACTTTTT
1 TCTTTTC-AAGTCCACAACTTC-ATGGCACCTTTT
* *
2253370 TCCTTT-AAGTCCATAACTT-ATTGGCACCCTTTT
1 TCTTTTCAAGTCCACAACTTCA-TGGCA-CCTTTT
* * *
2253403 TCATTTT-AAGTCCACAACTCCTTGACACC----
1 TC-TTTTCAAGTCCACAACTTCATGGCACCTTTT
* *
2253432 -CTTTT-AAGTCCACAACTCCGTGGCACC----
1 TCTTTTCAAGTCCACAACTTCATGGCACCTTTT
2253459 -C-TTTCAAGTCCACAAC-TCAATGGCACCTTTT
1 TCTTTTCAAGTCCACAACTTC-ATGGCACCTTTT
*
2253490 TCTTTTCAAAG-CCTACAACTCCATGGCACC----
1 TCTTTTC-AAGTCC-ACAACTTCATGGCACCTTTT
*
2253520 -CTTTT-AAGTCGACAACTCTC-TGGCACCTTTT
1 TCTTTTCAAGTCCACAACT-TCATGGCACCTTTT
2253551 TCTTTT
1 TCTTTT
2253557 GAAAACCTAC
Statistics
Matches: 656, Mismatches: 87, Indels: 143
0.74 0.10 0.16
Matches are distributed among these distances:
26 5 0.01
27 73 0.11
28 8 0.01
29 7 0.01
30 38 0.06
31 12 0.02
32 55 0.08
33 143 0.22
34 268 0.41
35 42 0.06
36 5 0.01
ACGTcount: A:0.22, C:0.32, G:0.11, T:0.35
Consensus pattern (33 bp):
TCTTTTCAAGTCCACAACTTCATGGCACCTTTT
Found at i:2252967 original size:68 final size:67
Alignment explanation
Indices: 2252709--2253524 Score: 449
Period size: 68 Copynumber: 12.5 Consensus size: 67
2252699 TAATGGCATC
* * * **
2252709 TCTTTTCCAAGTCCACGAC-TCAGTGGCATCCTTTTTCTTCT-AAGTCCATGACTCAGTGGCATC
1 TCTTTT-CAAGTCCACAACTTCA-TGGCACCCTTTTTCTTTTAAAGTCCACAACTCAGTGGCA-C
2252772 CTTTT
63 CTTTT
* * * * ** *
2252777 TC-TTCCAAGTCCACGAC-TCAGTGGCA-TC-TCTTC--TCCAAGTCCACGACTCAGTGGCATCC
1 TCTTTTCAAGTCCACAACTTCA-TGGCACCCTTTTTCTTTTAAAGTCCACAACTCAGTGGCA-CC
*
2252836 TTTC
64 TTTT
* * * *
2252840 TC-TTCCAAGTCCACAACTTTATGGCA-CCTTTTCACCTTTT-AAGTTCACAACTCTA-TGGCAC
1 TCTTTTCAAGTCCACAACTTCATGGCACCCTTTT--TCTTTTAAAGTCCACAACTC-AGTGGCAC
2252901 CTTTT
63 CTTTT
* * * *
2252906 TCTTTTCAAAGCCCATAACTTCATGGCA-CCTTTTTCTTTTCAAAGCCCATAACTGC-GTGGCA-
1 TCTTTTC-AAGTCCACAACTTCATGGCACCCTTTTTCTTTT-AAAGTCCACAACT-CAGTGGCAC
2252968 C----
63 CTTTT
** ** * * * *
2252969 T-TTTTCAAGTCCATGAC-TCAGTGGCATTCTTTTCCTTCCTAAAGTCCACGACTCAGTGGCATC
1 TCTTTTCAAGTCCACAACTTCA-TGGCACCCTTTTTCTT-TTAAAGTCCACAACTCAGTGGCACC
2253032 -TTT
64 TTTT
** * * * *
2253035 TC--CCCAATTCCACAACTTCGTGGCACCCCTTTTCCTTTT-AAGTCCACAACTCAGTGGCACAT
1 TCTTTTCAAGTCCACAACTTCATGGCA-CCCTTTTTCTTTTAAAGTCCACAACTCAGTGGCACCT
2253097 TTT
65 TTT
* * * * *
2253100 T-TTTTCAAAGCCCACAACTCCATGGCACCCTTTTTC-CTTAAAGTCCATAACTCAATGGCACCA
1 TCTTTTC-AAGTCCACAACTTCATGGCACCCTTTTTCTTTTAAAGTCCACAACTCAGTGGCACC-
2253163 TTTT
64 TTTT
* * * *
2253167 TCCTTTT-AAGTCCACAACTCCGTCGCACCCTTTTTCCTTTT-AAGTCCACAACTCCGTGGCACC
1 T-CTTTTCAAGTCCACAACTTCATGGCACCCTTTTT-CTTTTAAAGTCCACAACTCAGTGGCACC
2253230 TTTT
64 TTTT
* *
2253234 TCTTTTCAAAGCCCACAACTTTATGGCA-CCTTTTCTCCTTTT-AAGTCCACAACTCCA-TGGCA
1 TCTTTTC-AAGTCCACAACTTCATGGCACCCTTTT-T-CTTTTAAAGTCCACAACT-CAGTGGCA
2253296 TCCTTTT
62 -CCTTTT
* * * * *
2253303 TCCTTTT-AAGTCCATAACTCCGTGGCA-CCTTTTTCTTTTCAAAGCCCATAACTCTA-TGGCAC
1 T-CTTTTCAAGTCCACAACTTCATGGCACCCTTTTTCTTTT-AAAGTCCACAACTC-AGTGGCAC
*
2253365 TTTTT
63 CTTTT
* * ** *
2253370 TCCTTT-AAGTCCATAACTT-ATTGGCACCCTTTTTCATTTT-AAGTCCACAACTCCTTGACACC
1 TCTTTTCAAGTCCACAACTTCA-TGGCACCCTTTTTC-TTTTAAAGTCCACAACTCAGTGGCACC
2253432 ----
64 TTTT
* * *
2253432 -CTTTT-AAGTCCACAACTCCGTGGCACCC--TTTC-----AAGTCCACAACTCAATGGCACCTT
1 TCTTTTCAAGTCCACAACTTCATGGCACCCTTTTTCTTTTAAAGTCCACAACTCAGTGGCACCTT
2253488 TT
66 TT
*
2253490 TCTTTTCAAAG-CCTACAACTCCATGGCACCCTTTT
1 TCTTTTC-AAGTCC-ACAACTTCATGGCACCCTTTT
2253525 AAGTCGACAA
Statistics
Matches: 597, Mismatches: 92, Indels: 123
0.74 0.11 0.15
Matches are distributed among these distances:
54 19 0.03
59 9 0.02
60 5 0.01
61 57 0.10
62 29 0.05
63 52 0.09
64 27 0.05
65 22 0.04
66 121 0.20
67 95 0.16
68 141 0.24
69 15 0.03
70 5 0.01
ACGTcount: A:0.22, C:0.32, G:0.11, T:0.35
Consensus pattern (67 bp):
TCTTTTCAAGTCCACAACTTCATGGCACCCTTTTTCTTTTAAAGTCCACAACTCAGTGGCACCTT
TT
Found at i:2252974 original size:102 final size:100
Alignment explanation
Indices: 2252709--2253524 Score: 445
Period size: 102 Copynumber: 8.3 Consensus size: 100
2252699 TAATGGCATC
* * * * *
2252709 TCTTTTCCAAGTCCACGACT-CAGTGGCATCCTTTTTC--TTCTAAGTCCATGACTCAGTGGCAT
1 TCTTTTCAAAGTCCACAACTCCA-TGGCA-CCTTTTTCTTTTCAAAGCCCATAACTCA-TGGCA-
* ** * *
2252771 CCTTTTTCTTCCAAGTCCACGACTCAGTGGCA-----TC
62 CCTTTTCCTTTTAAGTCCACAACTCAGTGGCACCCTTTT
* * * * * * * *
2252805 TCTTCTCCAAGTCCACGACT-CAGTGGCATCC--TTTCTCTTCCAAGTCCACAACTTTATGGCAC
1 TCTTTTCAAAGTCCACAACTCCA-TGGCA-CCTTTTTCTTTTCAAAGCCCATAAC-TCATGGCAC
*
2252867 CTTTTCACCTTTTAAGTTCACAACTCTA-TGGCA-CCTTTT
63 CTTTT--CCTTTTAAGTCCACAACTC-AGTGGCACCCTTTT
* * * *
2252906 TCTTTTCAAAGCCCATAACTTCATGGCACCTTTTTCTTTTCAAAGCCCATAACTGCGTGGCA-C-
1 TCTTTTCAAAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCATAACT-CATGGCACCT
* ** **
2252969 -TT--TTTCAAGTCCATGACTCAGTGGCATTC-TTT
65 TTTCCTTTTAAGTCCACAACTCAGTGGCACCCTTTT
* * * * * * ** * *
2253001 TCCTTCCTAAAGTCCACGACT-CAGTGGCATC-TTTTC---CCCAATTCCACAACTTCGTGGCAC
1 TCTTTTC-AAAGTCCACAACTCCA-TGGCACCTTTTTCTTTTCAAAGCCCATAAC-TCATGGCA-
*
2253061 CCCTTTTCCTTTTAAGTCCACAACTCAGTGGCA-CATTTT
62 -CCTTTTCCTTTTAAGTCCACAACTCAGTGGCACCCTTTT
* * *
2253100 T-TTTTCAAAGCCCACAACTCCATGGCACCCTTTTTC-CTT-AAAGTCCATAACTCAATGGCACC
1 TCTTTTCAAAGTCCACAACTCCATGGCA-CCTTTTTCTTTTCAAAGCCCATAACTC-ATGGCACC
* *
2253162 ATTTTTCCTTTTAAGTCCACAACTCCGTCGCACCCTTTT
64 --TTTTCCTTTTAAGTCCACAACTCAGTGGCACCCTTTT
* * *
2253201 TCCTTTT--AAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTTTATGGCACC
1 T-CTTTTCAAAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCATAAC-TCATGGCACC
*
2253264 TTTTCTCCTTTTAAGTCCACAACTCCA-TGGCATCCTTTT
64 -TTT-TCCTTTTAAGTCCACAACT-CAGTGGCACCCTTTT
* *
2253303 TCCTTTT--AAGTCCATAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCATAACTCTATGGCACT
1 T-CTTTTCAAAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCATAACTC-ATGGCAC-
* * * *
2253366 TTTTTCC-TTTAAGTCCATAACTTATTGGCACCCTTTT
63 CTTTTCCTTTTAAGTCCACAACTCAGTGGCACCCTTTT
* * * * *
2253403 TCATTTT--AAGTCCACAACTCCTTGACACC-----CTTTT--AAGTCCACAACTCCGTGGCA-C
1 TC-TTTTCAAAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCATAACT-CATGGCACC
* *
2253458 ----CCTTTCAAGTCCACAACTCAATGGCA-CCTTTT
64 TTTTCCTTTTAAGTCCACAACTCAGTGGCACCCTTTT
*
2253490 TCTTTTCAAAG-CCTACAACTCCATGGCACCCTTTT
1 TCTTTTCAAAGTCC-ACAACTCCATGGCACCTTTTT
2253525 AAGTCGACAA
Statistics
Matches: 578, Mismatches: 85, Indels: 117
0.74 0.11 0.15
Matches are distributed among these distances:
86 4 0.01
87 12 0.02
88 36 0.06
92 16 0.03
93 16 0.03
94 6 0.01
95 45 0.08
96 64 0.11
97 39 0.07
98 9 0.02
99 36 0.06
100 101 0.17
101 57 0.10
102 131 0.23
103 6 0.01
ACGTcount: A:0.22, C:0.32, G:0.11, T:0.35
Consensus pattern (100 bp):
TCTTTTCAAAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCATAACTCATGGCACCTT
TTCCTTTTAAGTCCACAACTCAGTGGCACCCTTTT
Found at i:2253508 original size:61 final size:61
Alignment explanation
Indices: 2253443--2253567 Score: 187
Period size: 61 Copynumber: 2.0 Consensus size: 61
2253433 TTTTAAGTCC
* *
2253443 ACAACTCCGTGGCACCCTTTCAAGTCCACAACTCAATGGCACCTTTTTCTTTTCAAAGCCT
1 ACAACTCCATGGCACCCTTTCAAGTCCACAACTCAATGGCACCTTTTTCTTTTCAAAACCT
* * ** *
2253504 ACAACTCCATGGCACCCTTTTAAGTCGACAACTCTCTGGCACCTTTTTCTTTTGAAAACCT
1 ACAACTCCATGGCACCCTTTCAAGTCCACAACTCAATGGCACCTTTTTCTTTTCAAAACCT
2253565 ACA
1 ACA
2253568 CAAGTCAGTG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.26, C:0.33, G:0.11, T:0.30
Consensus pattern (61 bp):
ACAACTCCATGGCACCCTTTCAAGTCCACAACTCAATGGCACCTTTTTCTTTTCAAAACCT
Found at i:2253508 original size:88 final size:87
Alignment explanation
Indices: 2253371--2253546 Score: 225
Period size: 88 Copynumber: 2.0 Consensus size: 87
2253361 GCACTTTTTT
* * * *
2253371 CCTTTAAGTCCATAACTTATTGGCACCCTTTTTCATTTTAAGTCCACAACTCCTTGACACCCTTT
1 CCTTTAAGTCCACAACTCAATGGCACCCTTTTTCATTTTAAGTCCACAACTCCATGACACCCTTT
2253436 TAAGTCCACAACTC-CGTGGCAC
66 TAAGTCCACAACTCTC-TGGCAC
*
2253458 CCTTTCAAGTCCACAACTCAATGGCA-CCTTTTTC-TTTTCAAAG-CCTACAACTCCATGGCACC
1 CCTTT-AAGTCCACAACTCAATGGCACCCTTTTTCATTTT--AAGTCC-ACAACTCCATGACACC
*
2253520 CTTTTAAGTCGACAACTCTCTGGCAC
62 CTTTTAAGTCCACAACTCTCTGGCAC
2253546 C
1 C
2253547 TTTTTCTTTT
Statistics
Matches: 78, Mismatches: 6, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
86 4 0.05
87 15 0.19
88 58 0.74
89 1 0.01
ACGTcount: A:0.24, C:0.34, G:0.11, T:0.31
Consensus pattern (87 bp):
CCTTTAAGTCCACAACTCAATGGCACCCTTTTTCATTTTAAGTCCACAACTCCATGACACCCTTT
TAAGTCCACAACTCTCTGGCAC
Found at i:2253551 original size:27 final size:27
Alignment explanation
Indices: 2253406--2253551 Score: 134
Period size: 27 Copynumber: 5.1 Consensus size: 27
2253396 CCCTTTTTCA
* *
2253406 TTTTAAGTCCACAACTCCTTGACACCC
1 TTTTAAGTCCACAACTCCATGGCACCC
*
2253433 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCATGGCACCC
* *
2253460 TTTCAAGTCCACAACTCAATGGCACCTTTTTC
1 TTTTAAGTCCACAACTCCATGGCACC-----C
2253492 TTTTCAAAG-CCTACAACTCCATGGCACCC
1 TTTT--AAGTCC-ACAACTCCATGGCACCC
* *
2253521 TTTTAAGTCGACAACTCTC-TGGCACCT
1 TTTTAAGTCCACAACTC-CATGGCACCC
2253548 TTTT
1 TTTT
2253552 CTTTTGAAAA
Statistics
Matches: 100, Mismatches: 9, Indels: 20
0.78 0.07 0.16
Matches are distributed among these distances:
27 69 0.69
28 2 0.02
29 5 0.05
32 4 0.04
33 2 0.02
34 18 0.18
ACGTcount: A:0.24, C:0.34, G:0.11, T:0.32
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCATGGCACCC
Found at i:2253622 original size:31 final size:33
Alignment explanation
Indices: 2253565--2253637 Score: 114
Period size: 31 Copynumber: 2.2 Consensus size: 33
2253555 TTGAAAACCT
2253565 ACACAAGTCAGTGGCAACCCCCTCTCAAAAGCCC
1 ACACAAGTCAGTGGCAA-CCCCTCTCAAAAGCCC
*
2253599 ACA-AAGTCAGTGGCAA-CCCTCTCAAAAGTCC
1 ACACAAGTCAGTGGCAACCCCTCTCAAAAGCCC
2253630 ACACAAGT
1 ACACAAGT
2253638 TGGTGGCATC
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
31 17 0.46
32 4 0.11
33 13 0.35
34 3 0.08
ACGTcount: A:0.36, C:0.36, G:0.15, T:0.14
Consensus pattern (33 bp):
ACACAAGTCAGTGGCAACCCCTCTCAAAAGCCC
Found at i:2253712 original size:49 final size:49
Alignment explanation
Indices: 2253654--2253879 Score: 238
Period size: 49 Copynumber: 4.8 Consensus size: 49
2253644 CATCTCTTTC
* *
2253654 TAAGTCCAATGTCACTGTCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
2253703 TAAGACCAATGTCACTGGACTTGAATCAACAAATTGG------CA-C--
1 TAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * ** *
2253743 -AAGCCCAATATCGTTGGCCTTGAATCAACACATTGGCACCTTCATCTT
1 TAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
2253791 TAAGTCCAATGTCACTAGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
2253840 TAAAACCAATGTCGCTGGACTTGAATCAGCAAATTGGCAC
1 TAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCAC
2253880 AAGCCCAATA
Statistics
Matches: 144, Mismatches: 23, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
39 30 0.21
42 1 0.01
43 2 0.01
45 2 0.01
46 1 0.01
49 108 0.75
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (49 bp):
TAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:2253900 original size:137 final size:137
Alignment explanation
Indices: 2253654--2253905 Score: 461
Period size: 137 Copynumber: 1.8 Consensus size: 137
2253644 CATCTCTTTC
*
2253654 TAAGTCCAATGTCACTGTCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATGTCACT
1 TAAGTCCAATGTCACTGTCCTTGAATCAGCACATTGGCACCTTCATCTTTAAAACCAATGTCACT
2253719 GGACTTGAATCAACAAATTGGCACAAGCCCAATATCGTTGGCCTTGAATCAACACATTGGCACCT
66 GGACTTGAATCAACAAATTGGCACAAGCCCAATATCGTTGGCCTTGAATCAACACATTGGCACCT
2253784 TCATCTT
131 TCATCTT
*
2253791 TAAGTCCAATGTCACTAG-CCTTGAATCAGCACATTGGCACCTTCATCTTTAAAACCAATGTCGC
1 TAAGTCCAATGTCACT-GTCCTTGAATCAGCACATTGGCACCTTCATCTTTAAAACCAATGTCAC
*
2253855 TGGACTTGAATCAGCAAATTGGCACAAGCCCAATATCGTTGGCCTTGAATC
65 TGGACTTGAATCAACAAATTGGCACAAGCCCAATATCGTTGGCCTTGAATC
2253906 GGCACTGTCG
Statistics
Matches: 111, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
137 110 0.99
138 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (137 bp):
TAAGTCCAATGTCACTGTCCTTGAATCAGCACATTGGCACCTTCATCTTTAAAACCAATGTCACT
GGACTTGAATCAACAAATTGGCACAAGCCCAATATCGTTGGCCTTGAATCAACACATTGGCACCT
TCATCTT
Found at i:2257105 original size:19 final size:18
Alignment explanation
Indices: 2257081--2257159 Score: 80
Period size: 19 Copynumber: 4.6 Consensus size: 18
2257071 CGATACATTA
2257081 TATCGATACAAAACTTATG
1 TATCGATAC-AAACTTATG
2257100 TATCGATAC--A-TTA--
1 TATCGATACAAACTTATG
2257113 TA-CGATACAATACTTATG
1 TATCGATACAA-ACTTATG
2257131 TATCGATACAACACTTATG
1 TATCGATACAA-ACTTATG
*
2257150 TATTGATACA
1 TATCGATACA
2257160 TTGTATCGAT
Statistics
Matches: 51, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
12 6 0.12
13 2 0.04
15 4 0.08
16 4 0.08
18 2 0.04
19 33 0.65
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.34
Consensus pattern (18 bp):
TATCGATACAAACTTATG
Found at i:2257122 original size:31 final size:32
Alignment explanation
Indices: 2257071--2257140 Score: 124
Period size: 31 Copynumber: 2.2 Consensus size: 32
2257061 AGCTTCATAA
2257071 CGATACATTATATCGATACAAAACTTATGTAT
1 CGATACATTATATCGATACAAAACTTATGTAT
*
2257103 CGATACATTATA-CGATACAATACTTATGTAT
1 CGATACATTATATCGATACAAAACTTATGTAT
2257134 CGATACA
1 CGATACA
2257141 ACACTTATGT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 25 0.68
32 12 0.32
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (32 bp):
CGATACATTATATCGATACAAAACTTATGTAT
Found at i:2258069 original size:102 final size:99
Alignment explanation
Indices: 2257833--2259068 Score: 1235
Period size: 102 Copynumber: 12.5 Consensus size: 99
2257823 AAGAGTGATA
* * *
2257833 AAGGTGCCAATATGCTGATTC-AGGACCAGTGATATTGGGCTTAAAGATGAGAAAAAGG-ACATC
1 AAGGTGCCAATATGCTGATTCAAGG-CCAGCGATATTGGACTTAAAGAT-AG---AAGGTGC--C
* * *
2257896 AATGTGCTGATTGACAA--TCAGCGACATTAGACTTGAAGATGAG
59 AATGTGCTGATT--CAAGGCCAGCGACATTGGACTTAAAGAT--G
* * * ** **
2257939 AAGAATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGTTTTAAAGATGACGAAGACGCCAAT
1 AAG-GTGCCAATATGCTGATTCAAGGCCAGCGATATT-GGACTTAAAGAT-A-GAAGGTGCCAAT
* * *
2258004 ATACTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
62 GTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * * * *
2258042 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATAT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-A-GAAGGTGCCAATGT
* *
2258107 GCTGATTCAAGGCCAACGATATTGGACTTAAAGATG
64 GCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * * * *
2258143 AAAGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGAAC-T-----TA-AAGGTGCCAATCTGC
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAGAAGGTGCCAATGTGC
* * **
2258201 TGATTCAAGGACAGCGACATTGGTCTTAAAGACA
66 TGATTCAAGGCCAGCGACATTGGACTTAAAGATG
*
2258235 AAGGTGCCAATATGCTGATTCAAGGCAAGCGATATTGGACTTAAAGAT-GAAGGTGCCAATGTGC
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAGAAGGTGCCAATGTGC
* * **
2258299 TGATTTAAGGCCAGCGACATTGGTCTTAAAGACA
66 TGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * * * * *
2258333 AAGGTGCCACTATGCTGATTCAAGGCTAGCGATAATGGACTTAAAGGT-GAAGGTGCCAATCTAC
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAGAAGGTGCCAATGTGC
*
2258397 TAATTCAAGGCCAGCGACATTGGACTTAAAGATG
66 TGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * *
2258431 ACAAAGGCGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAAAAT-GAAGGTGCCAATG
1 ---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAGAAGGTGCCAATG
*
2258495 TGCTGATTCAAGGCCATCGACATTGGACTTAAAAGATG
63 TGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATG
* * *
2258533 ACAAAGGCGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGAT-GAAAGTGCCAATG
1 ---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAGAAGGTGCCAATG
2258597 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATG
63 TGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATG
* *
2258635 ACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGAT-GAAGGTGCCAATG
1 ---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAGAAGGTGCCAATG
**
2258699 TGCTGATTCAAGGCCA-CTGACATTGGGTTTTAAAGATG
63 TGCTGATTCAAGGCCAGC-GACATT-GGACTTAAAGATG
* *
2258737 -AGGTGCCAATATGCTGATTCAAGGCAAGCGATATTAGAC-T-----TA-AAGGTGCCAATGTGC
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAGAAGGTGCCAATGTGC
* * *
2258794 TGATTCAAGGCCAGCAAAATTGGTCTTAAAGATG
66 TGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* *
2258828 ACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGAT-GAAGGTGCCAATG
1 ---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAGAAGGTGCCAATG
** ** *
2258892 TGCTGATTCAAGGCTTGCGACATTGGGTTTTAAGGATG
63 TGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGATG
* * *
2258930 -AGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGAC-T-----TA-AAGGTGCTAATGTGT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAGAAGGTGCCAATGTGC
*
2258987 TGATTCAAGGCCAGCGACATTGGTCTTAAAGATG
66 TGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * *
2259021 ACAAAGGCGCCAATATGCTGATTCAAGGCTAGCGATATTGGGCTTAAA
1 ---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
2259069 AGAAGACGCC
Statistics
Matches: 988, Mismatches: 99, Indels: 93
0.84 0.08 0.08
Matches are distributed among these distances:
91 23 0.02
92 142 0.14
93 2 0.00
94 1 0.00
95 71 0.07
96 2 0.00
97 2 0.00
98 207 0.21
100 1 0.00
101 211 0.21
102 237 0.24
103 11 0.01
105 30 0.03
106 6 0.01
107 26 0.03
108 15 0.02
109 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (99 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAGAAGGTGCCAATGTGC
TGATTCAAGGCCAGCGACATTGGACTTAAAGATG
Found at i:2258070 original size:49 final size:49
Alignment explanation
Indices: 2257914--2259068 Score: 1173
Period size: 49 Copynumber: 23.4 Consensus size: 49
2257904 GATTGACAAT
* * * *
2257914 CAGCGACATTAGACTTGAAGATGAGAAGAATGCCAATGTGCTGATTCAAGGC
1 CAGCGACATTGGACTTAAAGAT--GAAG-GTGCCAATATGCTGATTCAAGGC
** ** *
2257966 CAGCGACATTGGGTTTTAAAGATGACGAAGACGCCAATATACTGATTCAAGGC
1 CAGCGACATT-GGACTTAAAGAT---GAAGGTGCCAATATGCTGATTCAAGGC
* *
2258019 CAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGC
1 CAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGC
*
2258068 CAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGC
1 CAGCGACATTGGACTTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGC
* * * *
2258120 CAACGATATTGGACTTAAAGATGAAAGTGCCAATGTGCTGATTCAAGGC
1 CAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGC
* * *
2258169 CAGCGACATTGAACTT----A--AAGGTGCCAATCTGCTGATTCAAGGA
1 CAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGC
* **
2258212 CAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTCAAGGC
1 CAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGC
* * * *
2258261 AAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTTAAGGC
1 CAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGC
* ** *
2258310 CAGCGACATTGGTCTTAAAGACAAAGGTGCCACTATGCTGATTCAAGGC
1 CAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGC
* * * * * * *
2258359 TAGCGATAATGGACTTAAAGGTGAAGGTGCCAATCTACTAATTCAAGGC
1 CAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGC
* *
2258408 CAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGTTGATTCAAGGC
1 CAGCGACATTGGACTTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGC
* * *
2258460 CAGCGATATTGGACTTAAAAATGAAGGTGCCAATGTGCTGATTCAAGGC
1 CAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGC
* *
2258509 CATCGACATTGGACTTAAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGC
1 CAGCGACATTGGACTT-AAAGATG---AAGGTGCCAATATGCTGATTCAAGGC
* * * *
2258562 CAACGATATTGGACTTAAAGATGAAAGTGCCAATGTGCTGATTCAAGGC
1 CAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGC
*
2258611 CAGCGACATTGGACTTAAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGC
1 CAGCGACATTGGACTT-AAAGATG---AAGGTGCCAATATGCTGATTCAAGGC
* * *
2258664 CAGCGATATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGC
1 CAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGC
**
2258713 CA-CTGACATTGGGTTTTAAAGATG-AGGTGCCAATATGCTGATTCAAGGC
1 CAGC-GACATT-GGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGC
* * * *
2258762 AAGCGATATTAGACTT----A--AAGGTGCCAATGTGCTGATTCAAGGC
1 CAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGC
* * * *
2258805 CAGCAAAATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGC
1 CAGCGACATTGGACTTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGC
* * *
2258857 CAGCGATATTGGGCTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGC
1 CAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGC
** ** * *
2258906 TTGCGACATTGGGTTTTAAGGATG-AGGTGCCAATATGCTAATTCAAGGC
1 CAGCGACATT-GGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGC
* * * *
2258955 CAGCGATATTGGACTT----A--AAGGTGCTAATGTGTTGATTCAAGGC
1 CAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGC
* *
2258998 CAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGC
1 CAGCGACATTGGACTTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGC
* * *
2259050 TAGCGATATTGGGCTTAAA
1 CAGCGACATTGGACTTAAA
2259069 AGAAGACGCC
Statistics
Matches: 915, Mismatches: 142, Indels: 92
0.80 0.12 0.08
Matches are distributed among these distances:
43 107 0.12
44 2 0.00
45 1 0.00
47 3 0.00
48 8 0.01
49 441 0.48
50 34 0.04
52 203 0.22
53 112 0.12
54 4 0.00
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
CAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGC
Found at i:2258283 original size:193 final size:193
Alignment explanation
Indices: 2257998--2259068 Score: 1370
Period size: 193 Copynumber: 5.5 Consensus size: 193
2257988 TGACGAAGAC
* * * * *
2257998 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGATG---AAGGTGCCAATGTGCTGA
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGA
* * *
2258060 TTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAACG
66 TTCAAGGCCAGCGATATTGGACTTAAAGATG---AAGGTGCCAATGTGCTGATTCAAGGCCAACG
* * * * *
2258125 ATATTGGACTTAAAGATGAAAGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGAACTTAAAGG
128 ACATTGGTCTTAAAGATGAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGG
2258190 T
193 T
* * * *
2258191 GCCAATCTGCTGATTCAAGGACAGCGACATTGGTCTT-AA-A-GACAAAGGTGCCAATATGCTGA
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGA
* * *
2258253 TTCAAGGCAAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTTAAGGCCAGCGACA
66 TTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAACGACA
* * * *
2258318 TTGGTCTTAAAGA-CAAAGGTGCCACTATGCTGATTCAAGGCTAGCGATAATGGACTTAAAGGTG
131 TTGGTCTTAAAGATGAAA-GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A----
2258382 AAGGT
189 AAGGT
* * * *
2258387 GCCAATCTACTAATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGTTGA
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGA
* *
2258452 TTCAAGGCCAGCGATATTGGACTTAAAAATGAAGGTGCCAATGTGCTGATTCAAGGCCATCGACA
66 TTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAACGACA
* * *
2258517 TTGGACTTAAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAG
131 TTGGTCTT-AAAGATG--AAA-GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-
2258582 ATGAAAGT
190 A-G---GT
2258590 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGACAAAGGCGCCAATATGCTG
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATGACAAAGGCGCCAATATGCTG
*
2258655 ATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC-ACTGA
65 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAAC-GA
* * * *
2258719 CATTGGGTTTTAAAGATG-AGGTGCCAATATGCTGATTCAAGGCAAGCGATATTAGACTTAAAGG
129 CATT-GGTCTTAAAGATGAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGG
2258783 T
193 T
* * *
2258784 GCCAATGTGCTGATTCAAGGCCAGCAAAATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTGA
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGA
* ***
2258849 TTCAAGGCCAGCGATATTGGGCTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCTTGCGACA
66 TTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAACGACA
* * * *
2258914 TTGGGTTTTAAGGATG-AGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGGT
131 TT-GGTCTTAAAGATGAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGT
* * *
2258977 GCTAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTGA
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGA
* *
2259042 TTCAAGGCTAGCGATATTGGGCTTAAA
66 TTCAAGGCCAGCGATATTGGACTTAAA
2259069 AGAAGACGCC
Statistics
Matches: 784, Mismatches: 68, Indels: 52
0.87 0.08 0.06
Matches are distributed among these distances:
189 3 0.00
190 75 0.10
191 1 0.00
192 3 0.00
193 311 0.40
194 37 0.05
196 38 0.05
197 3 0.00
198 3 0.00
199 91 0.12
200 41 0.05
201 1 0.00
202 2 0.00
203 75 0.10
204 96 0.12
205 4 0.01
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.24
Consensus pattern (193 bp):
GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGA
TTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAACGACA
TTGGTCTTAAAGATGAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGT
Found at i:2259145 original size:28 final size:29
Alignment explanation
Indices: 2259076--2259183 Score: 103
Period size: 30 Copynumber: 3.7 Consensus size: 29
2259066 AAAAGAAGAC
*
2259076 GCCACTAACTTGTGTGGGCTTTTGAAAGGGTT
1 GCCACTAAC-T-TGTGGGCTTTTAAAAGGG-T
* * * *
2259108 G-TACCAACTTGTGTGCTTTT-AAAGGTT
1 GCCACTAACTTGTGGGCTTTTAAAAGGGT
* *
2259135 GCCACTGACTTGTGGGTTTTTGAAAAGGGT
1 GCCACTAACTTGTGGGCTTTT-AAAAGGGT
2259165 GCCACTAACTTGTGGGCTT
1 GCCACTAACTTGTGGGCTT
2259184 AATAGGTGAA
Statistics
Matches: 61, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
27 2 0.03
28 19 0.31
29 10 0.16
30 24 0.39
31 5 0.08
32 1 0.02
ACGTcount: A:0.19, C:0.17, G:0.29, T:0.35
Consensus pattern (29 bp):
GCCACTAACTTGTGGGCTTTTAAAAGGGT
Done.